Citrus Sinensis ID: 028884

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200--
Protein Sequence
MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccEEEEEEEEEccccccHHHHHHHHHcccccccccccccEEEEccEEEEccccEEEEEEEEcccccccccccHHHHHcccEEEEEEEcccHHHHHHHHHHHHHHHHHcccccEEEEEEEcccccccccccHHHHHHHHHHcccEEEEccccccccHHHHHHHHHHHcccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccHEEEEEEEEEEccccccHHHHHHHHHcccccccccccccEEEEEEEEEEcccEEEEEEEEEEcccHHHHHHHHHHHccccEEEEEEEcccHHHHHHHHHHHHHHHHHcccccEEEEEEEcHHHHHHccccHHHHHHHHHHcccEEEEccccccccHHHHHHHHHHHcccHcccc
Coil and Loop (DISEMBL)
mgcsgsvparssgqsgglnnlenagssdaknLRVKLVLLgdsgvgksCIVLRFvrgqfdptskvtvgasflsqtialqdsttVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYditspdsfnKAQYWVKELQKHGSPDIVMALVGnkadlhekrevpaqdgieyaekNGMFFIETSAKTADNINQLFEEIAkrlprpspss
Flexible Loop (DISEMBL)
mgcsgsvparssgqsgglnnlenagssdaknLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGasflsqtialqdstTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEeiakrlprpspss
Low Complexity Region (SEG)
MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGaavavvvYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS
Disordered region (IsUnstruct)
*******************************LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH********DGIEYAEKNGMFFIETSAKTADNINQLF**************
Disordered Region (DISOPRED)
********************************RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK**PR*****
Disordered Region (DISEMBL)
***************GGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS
Disordered Region (DISPRO)
**************************SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	202	2.2.26 [Sep-21-2011]
Q9CB01	202	Ras-related protein RABF1	yes	no	1.0	1.0	0.876	1e-102
P31583	200	Ras-related protein RHN1	N/A	no	0.871	0.88	0.627	1e-62
P29687	200	Ras-related protein Rab5	N/A	no	0.841	0.85	0.625	8e-61
Q9SN68	200	Ras-related protein RABF2	no	no	0.846	0.855	0.593	4e-58
P31582	200	Ras-related protein RABF2	no	no	0.871	0.88	0.598	4e-58
Q58DS9	216	Ras-related protein Rab-5	yes	no	0.886	0.828	0.594	6e-58
Q86JP3	201	Ras-related protein Rab-5	yes	no	0.866	0.870	0.604	7e-58
P51147	216	Ras-related protein Rab-5	yes	no	0.886	0.828	0.588	1e-57
P35278	216	Ras-related protein Rab-5	yes	no	0.886	0.828	0.588	1e-57
Q98932	216	Ras-related protein Rab-5	yes	no	0.886	0.828	0.594	2e-57

>sp|Q9CB01|RABF1_ARATH Ras-related protein RABF1 OS=Arabidopsis thaliana GN=RABF1 PE=1 SV=1

 Score =  370 bits (951), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 177/202 (87%), Positives = 188/202 (93%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MGC+ S+P R+SG   GL+N ENA  +DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFD 
Sbjct: 1   MGCASSLPDRNSGTLSGLSNSENAVPADAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDA 60

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
           TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY+ALAPLYYRGA VAV+VYDITSP+
Sbjct: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYSALAPLYYRGAGVAVIVYDITSPE 120

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           SF KAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP +DG+E AEKNGMFFIETSAKT
Sbjct: 121 SFKKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPTEDGMELAEKNGMFFIETSAKT 180

Query: 181 ADNINQLFEEIAKRLPRPSPSS 202
           ADNINQLFEEI KRLPRP+PSS
Sbjct: 181 ADNINQLFEEIGKRLPRPAPSS 202

Endosomal protein probably involved in endocytosis. Probably not involved in vacuolar trafficking.
Arabidopsis thaliana (taxid: 3702)

>sp|P31583|RHN1_NICPL Ras-related protein RHN1 OS=Nicotiana plumbaginifolia GN=RHN1 PE=2 SV=1

 Score =  238 bits (608), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 111/177 (62%), Positives = 142/177 (80%), Gaps = 1/177 (0%)

Query: 25  GSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVK 84
            SS   NL  KLVLLGD G GKS +V+RFV+GQF    + T+GA+F S T+A+ ++T VK
Sbjct: 2   ASSSHNNLNAKLVLLGDMGAGKSSLVIRFVKGQFLEFQESTIGAAFFSSTLAVNNAT-VK 60

Query: 85  FEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMAL 144
           FEIWDTAGQERY +LAP+YYRGAA A++VYDITS DSF +A+ WV+ELQK G+P++VMAL
Sbjct: 61  FEIWDTAGQERYHSLAPMYYRGAAAAIIVYDITSSDSFARAKKWVQELQKQGNPNMVMAL 120

Query: 145 VGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPS 201
            GNKADL ++R+V A++   YAE+NG+FF+ETSAKTA N+N +F EIAKRLPR  P+
Sbjct: 121 AGNKADLEDRRKVTAEEARLYAEENGLFFMETSAKTAVNVNAIFYEIAKRLPRAQPA 177

Protein transport. Probably involved in vesicular traffic.

Nicotiana plumbaginifolia (taxid: 4092)

>sp|P29687|RAB5_TOBAC Ras-related protein Rab5 OS=Nicotiana tabacum GN=RAB5 PE=2 SV=1

 Score =  233 bits (593), Expect = 8e-61,   Method: Compositional matrix adjust.
 Identities = 107/171 (62%), Positives = 139/171 (81%), Gaps = 1/171 (0%)

Query: 31  NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           NL  KLVLLGD G GKS +V+RFV+GQF    + T+GA+F S T+++ ++T VKFEIWDT
Sbjct: 8   NLNAKLVLLGDMGAGKSSLVIRFVKGQFLEFQESTIGAAFFSSTVSVNNAT-VKFEIWDT 66

Query: 91  AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKAD 150
           AGQERY +LAP+YYRGAA A++VYDITS +S  +A+ WV+ELQK G+P++VMAL GNKAD
Sbjct: 67  AGQERYHSLAPMYYRGAAAAIIVYDITSTESLARAKKWVQELQKQGNPNMVMALAGNKAD 126

Query: 151 LHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPS 201
           L +KR+V A++   YAE+NG+FF+ETSAKTA N+N +F EIAKRLPR  P+
Sbjct: 127 LEDKRKVTAEEARLYAEENGLFFMETSAKTATNVNDIFYEIAKRLPRAQPA 177

Protein transport. Probably involved in vesicular traffic.

Nicotiana tabacum (taxid: 4097)

>sp|Q9SN68|RAF2B_ARATH Ras-related protein RABF2b OS=Arabidopsis thaliana GN=RABF2B PE=1 SV=1

 Score =  224 bits (570), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 102/172 (59%), Positives = 138/172 (80%), Gaps = 1/172 (0%)

Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K++  KLVLLGD G GKS +VLRFV+ QF    + T+GA+F SQT+A+ D+T VKFEIWD
Sbjct: 7   KSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDAT-VKFEIWD 65

Query: 90  TAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKA 149
           TAGQERY +LAP+YYRGAA A++V+D+T+  SF +A+ WV+ELQ  G+P++VMAL GNK+
Sbjct: 66  TAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKS 125

Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPS 201
           DL + R+V A+D   YA++NG+FF+ETSAKTA N+ ++F EIA+RLPR  P+
Sbjct: 126 DLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPT 177

Endosomal protein that may be involved in endocytosis.

Arabidopsis thaliana (taxid: 3702)

>sp|P31582|RAF2A_ARATH Ras-related protein RABF2a OS=Arabidopsis thaliana GN=RABF2A PE=1 SV=1

 Score =  224 bits (570), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 106/177 (59%), Positives = 138/177 (77%), Gaps = 1/177 (0%)

Query: 25  GSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVK 84
            SS  KN+  KLVLLGD G GKS +VLRFV+ QF    + T+GA+F SQT+A+ D+T VK
Sbjct: 2   ASSGNKNINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDAT-VK 60

Query: 85  FEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMAL 144
           FEIWDTAGQERY +LAP+YYRGAA A++V+DIT+  SF +A+ WV+ELQ  G+P++VMAL
Sbjct: 61  FEIWDTAGQERYHSLAPMYYRGAAAAIIVFDITNQASFERAKKWVQELQAQGNPNMVMAL 120

Query: 145 VGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPS 201
            GNKADL + R+V A++   YA++N +FF+ETSAKTA N+  +F EIAKRLPR  P+
Sbjct: 121 AGNKADLLDARKVSAEEAEIYAQENSLFFMETSAKTATNVKDIFYEIAKRLPRVQPA 177

Involved in the trafficking of soluble cargo proteins from the prevacuolar compartment to the central vacuole.

Arabidopsis thaliana (taxid: 3702)

>sp|Q58DS9|RAB5C_BOVIN Ras-related protein Rab-5C OS=Bos taurus GN=RAB5C PE=2 SV=1

 Score =  223 bits (569), Expect = 6e-58,   Method: Compositional matrix adjust.
 Identities = 107/180 (59%), Positives = 137/180 (76%), Gaps = 1/180 (0%)

Query: 23  NAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTT 82
           N  ++  K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TT
Sbjct: 11  NGPAAGNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCL-DDTT 69

Query: 83  VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVM 142
           VKFEIWDTAGQERY +LAP+YYRGA  A+VVYDIT+ D+F +A+ WVKELQ+  SP+IV+
Sbjct: 70  VKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVI 129

Query: 143 ALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
           AL GNKADL  KR V  Q+   YAE N + F+ETSAKTA N+N++F  IAK+LP+  P +
Sbjct: 130 ALAGNKADLASKRAVEFQEAQAYAEDNSLLFMETSAKTAMNVNEIFMAIAKKLPKNEPQN 189

Protein transport. Probably involved in vesicular traffic.

Bos taurus (taxid: 9913)

>sp|Q86JP3|RAB5A_DICDI Ras-related protein Rab-5A OS=Dictyostelium discoideum GN=rab5A PE=3 SV=1

 Score =  223 bits (568), Expect = 7e-58,   Method: Compositional matrix adjust.
 Identities = 107/177 (60%), Positives = 139/177 (78%), Gaps = 2/177 (1%)

Query: 26  SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKF 85
           +++ K  + KLVLLG++ VGKS +VLRFVRG F    + T+GA+FL+QT+ L D TTVKF
Sbjct: 2   NNNNKIFQFKLVLLGEAAVGKSSLVLRFVRGHFLDYQESTIGAAFLAQTVCLND-TTVKF 60

Query: 86  EIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALV 145
           EIWDTAGQERY  LAP+YYRGA  A+VVYDI S DSF +A  WVKELQ+ GSP+IV+AL 
Sbjct: 61  EIWDTAGQERYHTLAPMYYRGAQAAIVVYDIRSEDSFERAIKWVKELQRQGSPNIVIALA 120

Query: 146 GNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
           GNK DL  KR+V   +  +YAE+NG+ F+ETSAKT+ N+N+LF EIAK+LP+ +P++
Sbjct: 121 GNKLDLAAKRKVETAEAQQYAEENGLLFMETSAKTSQNVNELFVEIAKKLPK-TPTT 176

Required for the fusion of plasma membranes and early endosomes.

Dictyostelium discoideum (taxid: 44689)

>sp|P51147|RAB5C_CANFA Ras-related protein Rab-5C OS=Canis familiaris GN=RAB5C PE=2 SV=1

 Score =  222 bits (565), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 106/180 (58%), Positives = 137/180 (76%), Gaps = 1/180 (0%)

Query: 23  NAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTT 82
           N  ++  K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TT
Sbjct: 11  NGPAAGNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCL-DDTT 69

Query: 83  VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVM 142
           VKFEIWDTAGQERY +LAP+YYRGA  A+VVYDIT+ D+F +A+ WVKELQ+  SP+IV+
Sbjct: 70  VKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVI 129

Query: 143 ALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
           AL GNKADL  KR V  Q+   YA+ N + F+ETSAKTA N+N++F  IAK+LP+  P +
Sbjct: 130 ALAGNKADLASKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKLPKNEPQN 189

Protein transport. Probably involved in vesicular traffic.

Canis familiaris (taxid: 9615)

>sp|P35278|RAB5C_MOUSE Ras-related protein Rab-5C OS=Mus musculus GN=Rab5c PE=1 SV=2

 Score =  222 bits (565), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 106/180 (58%), Positives = 137/180 (76%), Gaps = 1/180 (0%)

Query: 23  NAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTT 82
           N  ++  K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TT
Sbjct: 11  NGPAAGNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCL-DDTT 69

Query: 83  VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVM 142
           VKFEIWDTAGQERY +LAP+YYRGA  A+VVYDIT+ D+F +A+ WVKELQ+  SP+IV+
Sbjct: 70  VKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVI 129

Query: 143 ALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
           AL GNKADL  KR V  Q+   YA+ N + F+ETSAKTA N+N++F  IAK+LP+  P +
Sbjct: 130 ALAGNKADLASKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKLPKNEPQN 189

Protein transport. Probably involved in vesicular traffic.

Mus musculus (taxid: 10090)

>sp|Q98932|RAB5C_CHICK Ras-related protein Rab-5C OS=Gallus gallus GN=RAB5C PE=1 SV=1

 Score =  222 bits (565), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 107/180 (59%), Positives = 137/180 (76%), Gaps = 1/180 (0%)

Query: 23  NAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTT 82
           N  ++  K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TT
Sbjct: 11  NGPAAGNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCL-DDTT 69

Query: 83  VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVM 142
           VKFEIWDTAGQERY +LAP+YYRGA  A+VVYDIT+ D+F +A+ WVKELQ+  SP+IV+
Sbjct: 70  VKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFVRAKNWVKELQRQASPNIVI 129

Query: 143 ALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
           AL GNKADL  KR V  QD   YA+ N + F+ETSAKTA N+N++F  IAK+LP+  P +
Sbjct: 130 ALAGNKADLATKRAVDFQDAQTYADDNSLLFMETSAKTAMNVNEIFMAIAKKLPKNEPQN 189

Protein transport. Probably involved in vesicular traffic.

Gallus gallus (taxid: 9031)

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	202
224113085	201	predicted protein [Populus trichocarpa]	0.995	1.0	0.905	1e-105
225448984	200	PREDICTED: ras-related protein RABF1 [Vi	0.990	1.0	0.920	1e-103
224097801	201	predicted protein [Populus trichocarpa]	0.995	1.0	0.895	1e-103
18410144	202	Ras-related small GTP-binding family pro	1.0	1.0	0.876	1e-100
297816780	202	predicted protein [Arabidopsis lyrata su	1.0	1.0	0.876	1e-100
3153154	201	small GTP-binding protein [Mesembryanthe	0.995	1.0	0.865	2e-98
449444622	199	PREDICTED: ras-related protein RABF1-lik	0.985	1.0	0.880	2e-98
84626822	200	small GTPase Rab5b [Nicotiana tabacum]	0.980	0.99	0.884	5e-98
255577452	224	protein with unknown function [Ricinus c	0.935	0.843	0.910	3e-97
356576246	200	PREDICTED: ras-related protein RABF1 [Gl	0.990	1.0	0.875	2e-96

>gi|224113085|ref|XP_002316386.1| predicted protein [Populus trichocarpa] gi|118488888|gb|ABK96253.1| unknown [Populus trichocarpa x Populus deltoides] gi|222865426|gb|EEF02557.1| predicted protein [Populus trichocarpa]

 Score =  386 bits (991), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 182/201 (90%), Positives = 193/201 (96%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MGCS S+P RS+G+ GGLNN E+ G +DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP
Sbjct: 1   MGCSSSLPDRSTGRLGGLNNSESGGVADAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
           TSKVT+GASFLSQTIALQDSTT+KFEIWDTAGQERYAALAPLYYRGAAVAV+VYDITSP+
Sbjct: 61  TSKVTIGASFLSQTIALQDSTTIKFEIWDTAGQERYAALAPLYYRGAAVAVIVYDITSPE 120

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           +FNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP QDGIEYAEKNGMFFIETSAKT
Sbjct: 121 TFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPTQDGIEYAEKNGMFFIETSAKT 180

Query: 181 ADNINQLFEEIAKRLPRPSPS 201
           ADNINQLFEEIAKRLPRPS +
Sbjct: 181 ADNINQLFEEIAKRLPRPSST 201

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225448984|ref|XP_002270699.1| PREDICTED: ras-related protein RABF1 [Vitis vinifera] gi|147864853|emb|CAN79376.1| hypothetical protein VITISV_009584 [Vitis vinifera] gi|296085986|emb|CBI31427.3| unnamed protein product [Vitis vinifera]

 Score =  380 bits (976), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 185/201 (92%), Positives = 191/201 (95%), Gaps = 1/201 (0%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MGCS S+P R+SG+ GGLN  EN G+ DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP
Sbjct: 1   MGCSSSLPDRNSGRLGGLN-AENGGAPDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 59

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
           TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSP+
Sbjct: 60  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPE 119

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           SFNKAQYWVKELQKHGSPDIVMALVGNKADLHE REVP QDGI+YAEKNGMFFIETSAKT
Sbjct: 120 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHENREVPVQDGIDYAEKNGMFFIETSAKT 179

Query: 181 ADNINQLFEEIAKRLPRPSPS 201
           ADNINQLFEEIAKRLPRPS S
Sbjct: 180 ADNINQLFEEIAKRLPRPSSS 200

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224097801|ref|XP_002311076.1| predicted protein [Populus trichocarpa] gi|222850896|gb|EEE88443.1| predicted protein [Populus trichocarpa]

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 180/201 (89%), Positives = 191/201 (95%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MGCS S+P RS+G+ GGLNN E+ G  DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP
Sbjct: 1   MGCSSSLPDRSTGRLGGLNNSESGGVVDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
           TSKVT+GASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV+VYDITSP+
Sbjct: 61  TSKVTIGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVIVYDITSPE 120

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           +FNKAQYWVKELQKHGSPDIVMALVGNKADL EKREVP QDGI+YAEKNGMFF+ETSAKT
Sbjct: 121 TFNKAQYWVKELQKHGSPDIVMALVGNKADLQEKREVPTQDGIDYAEKNGMFFMETSAKT 180

Query: 181 ADNINQLFEEIAKRLPRPSPS 201
           ADNINQLFEEIAKRLPRPS +
Sbjct: 181 ADNINQLFEEIAKRLPRPSST 201

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18410144|ref|NP_567008.1| Ras-related small GTP-binding family protein [Arabidopsis thaliana] gi|75169988|sp|Q9CB01.1|RABF1_ARATH RecName: Full=Ras-related protein RABF1; Short=AtRABF1; AltName: Full=Ras-related protein Ara-6; AltName: Full=Ras-related protein Rab5C; Short=AtRab5C gi|13160603|dbj|BAB32953.1| Ara6 [Arabidopsis thaliana] gi|27754459|gb|AAO22677.1| putative Rab family GTP-binding protein (Ara6) [Arabidopsis thaliana] gi|28393957|gb|AAO42386.1| putative Rab family GTP-binding protein (Ara6) [Arabidopsis thaliana] gi|332645777|gb|AEE79298.1| Ras-related small GTP-binding family protein [Arabidopsis thaliana]

 Score =  370 bits (951), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 177/202 (87%), Positives = 188/202 (93%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MGC+ S+P R+SG   GL+N ENA  +DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFD 
Sbjct: 1   MGCASSLPDRNSGTLSGLSNSENAVPADAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDA 60

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
           TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY+ALAPLYYRGA VAV+VYDITSP+
Sbjct: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYSALAPLYYRGAGVAVIVYDITSPE 120

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           SF KAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP +DG+E AEKNGMFFIETSAKT
Sbjct: 121 SFKKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPTEDGMELAEKNGMFFIETSAKT 180

Query: 181 ADNINQLFEEIAKRLPRPSPSS 202
           ADNINQLFEEI KRLPRP+PSS
Sbjct: 181 ADNINQLFEEIGKRLPRPAPSS 202

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297816780|ref|XP_002876273.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297322111|gb|EFH52532.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  368 bits (944), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 177/202 (87%), Positives = 187/202 (92%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MGC+ S+P R+SG   GL+N ENA  +DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFD 
Sbjct: 1   MGCATSLPDRNSGALSGLSNSENAVPADAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDA 60

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
           TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY+ALAPLYYRGA VAV+VYDITSP+
Sbjct: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYSALAPLYYRGAGVAVIVYDITSPE 120

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           SF KAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP +DGI  AEKNGMFFIETSAKT
Sbjct: 121 SFKKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPTEDGIGLAEKNGMFFIETSAKT 180

Query: 181 ADNINQLFEEIAKRLPRPSPSS 202
           ADNINQLFEEI KRLPRP+PSS
Sbjct: 181 ADNINQLFEEIGKRLPRPAPSS 202

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|3153154|emb|CAA06922.1| small GTP-binding protein [Mesembryanthemum crystallinum]

 Score =  363 bits (933), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 174/201 (86%), Positives = 184/201 (91%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MGC+ S P R+  +     N  N G+SDAKNL+VKLVLLGDSGVGKSCIVLRFVRGQFDP
Sbjct: 1   MGCASSAPDRTVSRGSSSLNSANEGASDAKNLKVKLVLLGDSGVGKSCIVLRFVRGQFDP 60

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
           TSKVTVGASFLSQTIALQDS+TVKFEIWDTAGQERYAALAPLYYRGAAVAV+VYDITSP+
Sbjct: 61  TSKVTVGASFLSQTIALQDSSTVKFEIWDTAGQERYAALAPLYYRGAAVAVIVYDITSPE 120

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           SF KAQYWVKELQKHGSPDI+MALVGNKADL E+REVPAQDGIEYAEKNGMFFIETSAKT
Sbjct: 121 SFTKAQYWVKELQKHGSPDIIMALVGNKADLQERREVPAQDGIEYAEKNGMFFIETSAKT 180

Query: 181 ADNINQLFEEIAKRLPRPSPS 201
           ADNINQLFEEIAKRLPR  PS
Sbjct: 181 ADNINQLFEEIAKRLPRLLPS 201

Source: Mesembryanthemum crystallinum

Species: Mesembryanthemum crystallinum

Genus: Mesembryanthemum

Family: Aizoaceae

Order: Caryophyllales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449444622|ref|XP_004140073.1| PREDICTED: ras-related protein RABF1-like [Cucumis sativus] gi|449490416|ref|XP_004158599.1| PREDICTED: ras-related protein RABF1-like [Cucumis sativus]

 Score =  363 bits (932), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 177/201 (88%), Positives = 189/201 (94%), Gaps = 2/201 (0%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MGCS SVP R+SG+SGGLN  EN+ ++D+KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP
Sbjct: 1   MGCSSSVPDRASGRSGGLNP-ENS-AADSKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 58

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
           TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV+VYDITS D
Sbjct: 59  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVIVYDITSSD 118

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           SF KAQYWVKELQKHGSPDI++ALVGNKADL EKR+V  QDG EYAEKNGMFFIETSAKT
Sbjct: 119 SFAKAQYWVKELQKHGSPDIILALVGNKADLQEKRKVTVQDGTEYAEKNGMFFIETSAKT 178

Query: 181 ADNINQLFEEIAKRLPRPSPS 201
           ADNIN+LFEEIAKRLPRP+ S
Sbjct: 179 ADNINELFEEIAKRLPRPTSS 199

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|84626822|gb|ABC59814.1| small GTPase Rab5b [Nicotiana tabacum]

 Score =  362 bits (928), Expect = 5e-98,   Method: Compositional matrix adjust.
 Identities = 176/199 (88%), Positives = 186/199 (93%), Gaps = 1/199 (0%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MGC+ SV  R+SG++ GLN  +N G+ D KNL+VKLVLLGDSGVGKSCIVLRFVRGQFDP
Sbjct: 1   MGCASSVADRNSGRAAGLNP-DNGGAVDPKNLKVKLVLLGDSGVGKSCIVLRFVRGQFDP 59

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
           TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSP+
Sbjct: 60  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPE 119

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           SF KAQYWVKELQKHGSPDIVMALVGNKADLHEKREV  QDGI+ AEKNGMFFIETSAKT
Sbjct: 120 SFAKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVTTQDGIDCAEKNGMFFIETSAKT 179

Query: 181 ADNINQLFEEIAKRLPRPS 199
           ADNINQLFEEIAKRLPRP+
Sbjct: 180 ADNINQLFEEIAKRLPRPA 198

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255577452|ref|XP_002529605.1| protein with unknown function [Ricinus communis] gi|223530938|gb|EEF32797.1| protein with unknown function [Ricinus communis]

 Score =  360 bits (923), Expect = 3e-97,   Method: Compositional matrix adjust.
 Identities = 172/189 (91%), Positives = 180/189 (95%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MGC+ S+P R+SG+ GGLNN +N G SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP
Sbjct: 1   MGCASSLPDRNSGRLGGLNNSDNNGVSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
           TSKVT+GASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV+VYDITSPD
Sbjct: 61  TSKVTIGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVIVYDITSPD 120

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           SFNKAQYWVKELQKHGSPDIVMALVGNKADLH+ REVP QDG EYAEKNGMFFIETSAKT
Sbjct: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHDNREVPVQDGKEYAEKNGMFFIETSAKT 180

Query: 181 ADNINQLFE 189
           ADNINQLFE
Sbjct: 181 ADNINQLFE 189

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356576246|ref|XP_003556244.1| PREDICTED: ras-related protein RABF1 [Glycine max]

 Score =  357 bits (915), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 176/201 (87%), Positives = 183/201 (91%), Gaps = 1/201 (0%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MGC  S+P R S Q G  N+ EN G  DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP
Sbjct: 1   MGCGSSLPDRDSRQLGRPNS-ENGGGQDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 59

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
           TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV+VYDITSP+
Sbjct: 60  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVIVYDITSPE 119

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           SF+KAQYWVKELQKHGSPDIVMALVGNKADL EKREV  QDG +YAEKN MFFIETSAKT
Sbjct: 120 SFSKAQYWVKELQKHGSPDIVMALVGNKADLLEKREVAVQDGTDYAEKNDMFFIETSAKT 179

Query: 181 ADNINQLFEEIAKRLPRPSPS 201
           ADNIN+LFEEIAKRLPRPS S
Sbjct: 180 ADNINELFEEIAKRLPRPSVS 200

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	202
TAIR|locus:2082672	202	ARA6 [Arabidopsis thaliana (ta	1.0	1.0	0.851	2e-88
UNIPROTKB|Q58DS9	216	RAB5C "Ras-related protein Rab	0.930	0.870	0.549	2.2e-50
UNIPROTKB|F2Z560	216	RAB5C "Uncharacterized protein	0.930	0.870	0.549	2.2e-50
DICTYBASE|DDB_G0271984	201	rab5A "Rab GTPase" [Dictyostel	0.866	0.870	0.581	2.8e-50
FB|FBgn0014010	219	Rab5 "Rab5" [Drosophila melano	0.920	0.849	0.566	2.8e-50
UNIPROTKB|Q98932	216	RAB5C "Ras-related protein Rab	0.930	0.870	0.549	2.8e-50
TAIR|locus:2153202	200	RHA1 "RAB homolog 1" [Arabidop	0.866	0.875	0.579	2.8e-50
ZFIN|ZDB-GENE-030131-139	216	rab5aa "RAB5A, member RAS onco	0.886	0.828	0.573	3.6e-50
ZFIN|ZDB-GENE-031118-30	221	rab5c "RAB5C, member RAS oncog	0.910	0.832	0.562	3.6e-50
UNIPROTKB|P51147	216	RAB5C "Ras-related protein Rab	0.930	0.870	0.544	4.6e-50

TAIR|locus:2082672 ARA6 [Arabidopsis thaliana (taxid:3702)]

 Score = 883 (315.9 bits), Expect = 2.0e-88, P = 2.0e-88
 Identities = 172/202 (85%), Positives = 182/202 (90%)

Query:     1 MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
             MGC+ S+P R+SG   GL+N ENA  +DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFD 
Sbjct:     1 MGCASSLPDRNSGTLSGLSNSENAVPADAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDA 60

Query:    61 TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPD 120
             TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY+ALAPLYYRG       YDITSP+
Sbjct:    61 TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYSALAPLYYRGAGVAVIVYDITSPE 120

Query:   121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
             SF KAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP +DG+E AEKNGMFFIETSAKT
Sbjct:   121 SFKKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPTEDGMELAEKNGMFFIETSAKT 180

Query:   181 ADNINQLFEEIAKRLPRPSPSS 202
             ADNINQLFEEI KRLPRP+PSS
Sbjct:   181 ADNINQLFEEIGKRLPRPAPSS 202

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

GO:0005794 "Golgi apparatus" evidence=ISM

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

GO:0009507 "chloroplast" evidence=ISM

GO:0015031 "protein transport" evidence=IEA

GO:0003924 "GTPase activity" evidence=IDA

GO:0005769 "early endosome" evidence=IDA

GO:0010009 "external side of endosome membrane" evidence=IDA

GO:0045022 "early endosome to late endosome transport" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005768 "endosome" evidence=IDA

GO:0006623 "protein targeting to vacuole" evidence=RCA

GO:0006944 "cellular membrane fusion" evidence=RCA

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

GO:0016197 "endosomal transport" evidence=RCA

UNIPROTKB|Q58DS9 RAB5C "Ras-related protein Rab-5C" [Bos taurus (taxid:9913)]

 Score = 524 (189.5 bits), Expect = 2.2e-50, P = 2.2e-50
 Identities = 105/191 (54%), Positives = 136/191 (71%)

Query:    12 SGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFL 71
             +G+ G      N  ++  K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL
Sbjct:     2 AGRGGAAR--PNGPAAGNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFL 59

Query:    72 SQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKE 131
             +QT+ L D TTVKFEIWDTAGQERY +LAP+YYRG       YDIT+ D+F +A+ WVKE
Sbjct:    60 TQTVCLDD-TTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKE 118

Query:   132 LQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
             LQ+  SP+IV+AL GNKADL  KR V  Q+   YAE N + F+ETSAKTA N+N++F  I
Sbjct:   119 LQRQASPNIVIALAGNKADLASKRAVEFQEAQAYAEDNSLLFMETSAKTAMNVNEIFMAI 178

Query:   192 AKRLPRPSPSS 202
             AK+LP+  P +
Sbjct:   179 AKKLPKNEPQN 189

GO:0019003 "GDP binding" evidence=ISS

GO:0042470 "melanosome" evidence=IEA

GO:0031901 "early endosome membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0030139 "endocytic vesicle" evidence=IEA

GO:0030100 "regulation of endocytosis" evidence=IEA

GO:0007032 "endosome organization" evidence=IEA

GO:0005811 "lipid particle" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

UNIPROTKB|F2Z560 RAB5C "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 524 (189.5 bits), Expect = 2.2e-50, P = 2.2e-50
 Identities = 105/191 (54%), Positives = 136/191 (71%)

Query:    12 SGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFL 71
             +G+ G      N  ++  K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL
Sbjct:     2 AGRGGAAR--PNGPAAGNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFL 59

Query:    72 SQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKE 131
             +QT+ L D TTVKFEIWDTAGQERY +LAP+YYRG       YDIT+ D+F +A+ WVKE
Sbjct:    60 TQTVCLDD-TTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKE 118

Query:   132 LQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
             LQ+  SP+IV+AL GNKADL  KR V  Q+   YAE N + F+ETSAKTA N+N++F  I
Sbjct:   119 LQRQASPNIVIALAGNKADLASKRAVEFQEAQAYAEDNSLLFMETSAKTAMNVNEIFMAI 178

Query:   192 AKRLPRPSPSS 202
             AK+LP+  P +
Sbjct:   179 AKKLPKNEPQN 189

GO:0030139 "endocytic vesicle" evidence=IEA

GO:0030100 "regulation of endocytosis" evidence=IEA

GO:0007032 "endosome organization" evidence=IEA

GO:0005811 "lipid particle" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

DICTYBASE|DDB_G0271984 rab5A "Rab GTPase" [Dictyostelium discoideum (taxid:44689)]

 Score = 523 (189.2 bits), Expect = 2.8e-50, P = 2.8e-50
 Identities = 103/177 (58%), Positives = 134/177 (75%)

Query:    26 SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKF 85
             +++ K  + KLVLLG++ VGKS +VLRFVRG F    + T+GA+FL+QT+ L D TTVKF
Sbjct:     2 NNNNKIFQFKLVLLGEAAVGKSSLVLRFVRGHFLDYQESTIGAAFLAQTVCLND-TTVKF 60

Query:    86 EIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALV 145
             EIWDTAGQERY  LAP+YYRG       YDI S DSF +A  WVKELQ+ GSP+IV+AL 
Sbjct:    61 EIWDTAGQERYHTLAPMYYRGAQAAIVVYDIRSEDSFERAIKWVKELQRQGSPNIVIALA 120

Query:   146 GNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
             GNK DL  KR+V   +  +YAE+NG+ F+ETSAKT+ N+N+LF EIAK+LP+ +P++
Sbjct:   121 GNKLDLAAKRKVETAEAQQYAEENGLLFMETSAKTSQNVNELFVEIAKKLPK-TPTT 176

GO:0015031 "protein transport" evidence=IEA

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

GO:0005525 "GTP binding" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005768 "endosome" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0010008 "endosome membrane" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

FB|FBgn0014010 Rab5 "Rab5" [Drosophila melanogaster (taxid:7227)]

 Score = 523 (189.2 bits), Expect = 2.8e-50, P = 2.8e-50
 Identities = 107/189 (56%), Positives = 135/189 (71%)

Query:    10 RSSGQSG-GLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGA 68
             RS G SG G     N G+S  K+ + KLVLLG+S VGKS +VLRFV+GQF    + T+GA
Sbjct:     6 RSGGASGTGTAQRPN-GTSQNKSCQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGA 64

Query:    69 SFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYW 128
             +FL+QTI ++D T VKFEIWDTAGQERY +LAP+YYRG       YDI + DSF +A+ W
Sbjct:    65 AFLTQTICIED-TVVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDIQNQDSFQRAKTW 123

Query:   129 VKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF 188
             VKEL K  SP+IV+AL GNKADL   R V   +  +YAE+NG+ F+ETSAKT  N+N +F
Sbjct:   124 VKELHKQASPNIVIALAGNKADLSNIRVVEFDEAKQYAEENGLLFMETSAKTGMNVNDIF 183

Query:   189 EEIAKRLPR 197
               IAK+LP+
Sbjct:   184 LAIAKKLPK 192

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

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

GO:0048488 "synaptic vesicle endocytosis" evidence=TAS

GO:0016189 "synaptic vesicle to endosome fusion" evidence=IMP;TAS

GO:0005769 "early endosome" evidence=IDA;NAS

GO:0006325 "chromatin organization" evidence=IMP

GO:0016321 "female meiosis chromosome segregation" evidence=IMP

GO:0007067 "mitosis" evidence=IMP

GO:0050803 "regulation of synapse structure and activity" evidence=IMP

GO:0007349 "cellularization" evidence=IMP

GO:0015031 "protein transport" evidence=IEA

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

GO:0007298 "border follicle cell migration" evidence=IMP

GO:0006897 "endocytosis" evidence=IMP

GO:0008285 "negative regulation of cell proliferation" evidence=IMP

GO:0035088 "establishment or maintenance of apical/basal cell polarity" evidence=IMP

GO:0005811 "lipid particle" evidence=IDA

GO:0031982 "vesicle" evidence=ISS

GO:0007220 "Notch receptor processing" evidence=IMP

GO:0035220 "wing disc development" evidence=IMP

GO:0048477 "oogenesis" evidence=IMP

GO:0030100 "regulation of endocytosis" evidence=IMP

GO:0034058 "endosomal vesicle fusion" evidence=IMP

GO:0007409 "axonogenesis" evidence=IMP

GO:0048813 "dendrite morphogenesis" evidence=IMP

GO:0046664 "dorsal closure, amnioserosa morphology change" evidence=IMP

GO:0048803 "imaginal disc-derived male genitalia morphogenesis" evidence=IMP

UNIPROTKB|Q98932 RAB5C "Ras-related protein Rab-5C" [Gallus gallus (taxid:9031)]

 Score = 523 (189.2 bits), Expect = 2.8e-50, P = 2.8e-50
 Identities = 105/191 (54%), Positives = 136/191 (71%)

Query:    12 SGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFL 71
             +G+ G      N  ++  K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL
Sbjct:     2 AGRGGAAR--PNGPAAGNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFL 59

Query:    72 SQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKE 131
             +QT+ L D TTVKFEIWDTAGQERY +LAP+YYRG       YDIT+ D+F +A+ WVKE
Sbjct:    60 TQTVCLDD-TTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFVRAKNWVKE 118

Query:   132 LQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
             LQ+  SP+IV+AL GNKADL  KR V  QD   YA+ N + F+ETSAKTA N+N++F  I
Sbjct:   119 LQRQASPNIVIALAGNKADLATKRAVDFQDAQTYADDNSLLFMETSAKTAMNVNEIFMAI 178

Query:   192 AKRLPRPSPSS 202
             AK+LP+  P +
Sbjct:   179 AKKLPKNEPQN 189

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

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0031901 "early endosome membrane" evidence=IEA

GO:0019003 "GDP binding" evidence=ISS

TAIR|locus:2153202 RHA1 "RAB homolog 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 523 (189.2 bits), Expect = 2.8e-50, P = 2.8e-50
 Identities = 102/176 (57%), Positives = 132/176 (75%)

Query:    26 SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKF 85
             SS  KN+  KLVLLGD G GKS +VLRFV+ QF    + T+GA+F SQT+A+ D+T VKF
Sbjct:     3 SSGNKNINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDAT-VKF 61

Query:    86 EIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALV 145
             EIWDTAGQERY +LAP+YYRG       +DIT+  SF +A+ WV+ELQ  G+P++VMAL 
Sbjct:    62 EIWDTAGQERYHSLAPMYYRGAAAAIIVFDITNQASFERAKKWVQELQAQGNPNMVMALA 121

Query:   146 GNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPS 201
             GNKADL + R+V A++   YA++N +FF+ETSAKTA N+  +F EIAKRLPR  P+
Sbjct:   122 GNKADLLDARKVSAEEAEIYAQENSLFFMETSAKTATNVKDIFYEIAKRLPRVQPA 177

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0005774 "vacuolar membrane" evidence=IMP

GO:0007034 "vacuolar transport" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0010200 "response to chitin" evidence=RCA

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

GO:0005783 "endoplasmic reticulum" evidence=IDA

ZFIN|ZDB-GENE-030131-139 rab5aa "RAB5A, member RAS oncogene family, a" [Danio rerio (taxid:7955)]

 Score = 522 (188.8 bits), Expect = 3.6e-50, P = 3.6e-50
 Identities = 105/183 (57%), Positives = 134/183 (73%)

Query:    20 NLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQD 79
             N  NAG+   K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D
Sbjct:    11 NGSNAGN---KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTLCLDD 67

Query:    80 STTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPD 139
              TTVKFEIWDTAGQERY +LAP+YYRG       YDIT+ +SF +A+ WVKELQ+  SP+
Sbjct:    68 -TTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN 126

Query:   140 IVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPS 199
             IV+AL GNKADL  KR V  QD   YA+ N + F+ETSAKT+ N+N++F  IAK+LP+  
Sbjct:   127 IVIALSGNKADLANKRAVDFQDAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKSE 186

Query:   200 PSS 202
             P +
Sbjct:   187 PQA 189

GO:0005525 "GTP binding" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

ZFIN|ZDB-GENE-031118-30 rab5c "RAB5C, member RAS oncogene family" [Danio rerio (taxid:7955)]

 Score = 522 (188.8 bits), Expect = 3.6e-50, P = 3.6e-50
 Identities = 104/185 (56%), Positives = 131/185 (70%)

Query:    16 GGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTI 75
             GG      A     K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+
Sbjct:     5 GGPARTNGAAPVGNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTL 64

Query:    76 ALQDSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKH 135
              L D TTVKFEIWDTAGQERY +LAP+YYRG       YDIT+ D+F +A+ WVKELQ+ 
Sbjct:    65 CLDD-TTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFTRAKNWVKELQRQ 123

Query:   136 GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
              SP+IV+AL GNKADL  KR V  Q+   YA+ N + F+ETSAKTA N+N++F  IAK+L
Sbjct:   124 ASPNIVIALAGNKADLANKRAVDFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 183

Query:   196 PRPSP 200
             P+  P
Sbjct:   184 PKSEP 188

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

GO:0001702 "gastrulation with mouth forming second" evidence=IMP

GO:0016337 "cell-cell adhesion" evidence=IMP

GO:0030100 "regulation of endocytosis" evidence=IMP

GO:0001525 "angiogenesis" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005768 "endosome" evidence=IDA

UNIPROTKB|P51147 RAB5C "Ras-related protein Rab-5C" [Canis lupus familiaris (taxid:9615)]

 Score = 521 (188.5 bits), Expect = 4.6e-50, P = 4.6e-50
 Identities = 104/191 (54%), Positives = 136/191 (71%)

Query:    12 SGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFL 71
             +G+ G      N  ++  K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL
Sbjct:     2 AGRGGAAR--PNGPAAGNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFL 59

Query:    72 SQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKE 131
             +QT+ L D TTVKFEIWDTAGQERY +LAP+YYRG       YDIT+ D+F +A+ WVKE
Sbjct:    60 TQTVCLDD-TTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKE 118

Query:   132 LQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
             LQ+  SP+IV+AL GNKADL  KR V  Q+   YA+ N + F+ETSAKTA N+N++F  I
Sbjct:   119 LQRQASPNIVIALAGNKADLASKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAI 178

Query:   192 AKRLPRPSPSS 202
             AK+LP+  P +
Sbjct:   179 AKKLPKNEPQN 189

GO:0019003 "GDP binding" evidence=ISS

GO:0042470 "melanosome" evidence=IEA

GO:0031901 "early endosome membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0030139 "endocytic vesicle" evidence=IEA

GO:0030100 "regulation of endocytosis" evidence=IEA

GO:0007032 "endosome organization" evidence=IEA

GO:0005811 "lipid particle" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P51148	RAB5C_HUMAN	No assigned EC number	0.5888	0.8861	0.8287	yes	no
Q98932	RAB5C_CHICK	No assigned EC number	0.5944	0.8861	0.8287	yes	no
P61271	RAB5A_MACFA	No assigned EC number	0.5833	0.8861	0.8325	N/A	no
Q58DS9	RAB5C_BOVIN	No assigned EC number	0.5944	0.8861	0.8287	yes	no
P51147	RAB5C_CANFA	No assigned EC number	0.5888	0.8861	0.8287	yes	no
P36586	YPT5_SCHPO	No assigned EC number	0.5485	0.8613	0.8246	yes	no
P35278	RAB5C_MOUSE	No assigned EC number	0.5888	0.8861	0.8287	yes	no
Q9CB01	RABF1_ARATH	No assigned EC number	0.8762	1.0	1.0	yes	no
P36017	VPS21_YEAST	No assigned EC number	0.5361	0.8019	0.7714	yes	no
Q86JP3	RAB5A_DICDI	No assigned EC number	0.6045	0.8663	0.8706	yes	no
Q5R7L7	RAB5C_PONAB	No assigned EC number	0.5888	0.8861	0.8287	yes	no
P31583	RHN1_NICPL	No assigned EC number	0.6271	0.8712	0.88	N/A	no
P29687	RAB5_TOBAC	No assigned EC number	0.6257	0.8415	0.85	N/A	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

Your Input: grail3.0022043501 hypothetical protein (202 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	202
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	1e-109
pfam00071	162	pfam00071, Ras, Ras family	4e-85
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	4e-83
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	5e-81
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	3e-71
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	7e-68
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	2e-67
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	4e-63
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	5e-62
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	9e-57
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	3e-56
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	2e-54
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	3e-54
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	3e-53
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	1e-52
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	7e-52
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	2e-51
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	3e-48
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	1e-46
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	5e-46
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	3e-44
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	3e-43
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	2e-42
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	1e-40
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	2e-40
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	5e-40
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	9e-40
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	1e-39
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	1e-38
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	3e-37
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	1e-36
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	2e-36
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	2e-36
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	3e-36
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	2e-35
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	4e-33
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	4e-33
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	1e-32
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	5e-32
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	9e-32
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	2e-31
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	2e-31
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	1e-30
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	2e-30
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	4e-30
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	5e-30
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	2e-29
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	8e-29
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	1e-28
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	2e-28
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	5e-28
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	5e-28
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	9e-28
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	1e-27
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	1e-27
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	2e-27
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	3e-27
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	3e-27
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	1e-26
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	6e-26
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	4e-25
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	8e-24
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	2e-23
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	3e-23
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	5e-23
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	5e-23
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	2e-22
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	4e-22
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	6e-22
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	2e-21
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	1e-20
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	2e-20
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	4e-20
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	7e-20
pfam08477	116	pfam08477, Miro, Miro-like protein	3e-19
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	1e-18
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	2e-18
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	3e-18
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	1e-15
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	2e-14
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	2e-13
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	8e-13
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	3e-12
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	5e-12
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	2e-11
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	4e-11
cd01873	195	cd01873, RhoBTB, RhoBTB protein is an atypical mem	2e-10
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	9e-09
PLN00023	334	PLN00023, PLN00023, GTP-binding protein; Provision	8e-08
TIGR03918	391	TIGR03918, GTP_HydF, [FeFe] hydrogenase H-cluster	2e-07
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	5e-07
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	6e-07
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	4e-06
cd01892	180	cd01892, Miro2, Mitochondrial Rho family 2 (Miro2)	4e-06
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	6e-06
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	9e-06
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	3e-05
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	6e-05
COG0486	454	COG0486, ThdF, Predicted GTPase [General function	7e-05
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	7e-05
cd04164	159	cd04164, trmE, trmE is a tRNA modification GTPase	1e-04
PRK00089	292	PRK00089, era, GTPase Era; Reviewed	2e-04
pfam04670	230	pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserve	2e-04
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	3e-04
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	4e-04
cd04163	168	cd04163, Era, E	5e-04
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	5e-04
COG2262	411	COG2262, HflX, GTPases [General function predictio	6e-04
COG1159	298	COG1159, Era, GTPase [General function prediction	7e-04
PRK05291	449	PRK05291, trmE, tRNA modification GTPase TrmE; Rev	8e-04
COG1160	444	COG1160, COG1160, Predicted GTPases [General funct	0.003
cd00880	161	cd00880, Era_like, E	0.003
cd01878	204	cd01878, HflX, HflX GTPase family	0.004
cd04103	158	cd04103, Centaurin_gamma, Centaurin gamma (CENTG)	0.004

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

 Score =  309 bits (794), Expect = e-109
 Identities = 108/164 (65%), Positives = 136/164 (82%), Gaps = 1/164 (0%)

Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           + KLVLLGDS VGKS IVLRFV+ +F    + T+GA+FL+QT+ L D TTVKFEIWDTAG
Sbjct: 1   QFKLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDD-TTVKFEIWDTAG 59

Query: 93  QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           QERY +LAP+YYRGAA A+VVYDITS +SF KA+ WVKELQ+HG P+IV+AL GNKADL 
Sbjct: 60  QERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPNIVIALAGNKADLE 119

Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
            KR+V  ++  EYA++NG+ F+ETSAKT +N+N+LF EIA++LP
Sbjct: 120 SKRQVSTEEAQEYADENGLLFMETSAKTGENVNELFTEIARKLP 163

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

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

 Score =  248 bits (635), Expect = 4e-85
 Identities = 77/163 (47%), Positives = 114/163 (69%), Gaps = 1/163 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLVL+GD GVGKS +++RF + +F      T+G  F ++TI + D  TVK +IWDTAGQE
Sbjct: 1   KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEV-DGKTVKLQIWDTAGQE 59

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ AL PLYYRGA   ++VYDITS DSF   + W++E+ +H   ++ + LVGNK DL ++
Sbjct: 60  RFRALRPLYYRGAQGFLLVYDITSRDSFENVKKWLEEILRHADENVPIVLVGNKCDLEDQ 119

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           R V  ++G   A++ G+ F+ETSAKT +N+ + FEE+A+ + +
Sbjct: 120 RVVSTEEGEALAKELGLPFMETSAKTNENVEEAFEELAREILK 162

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

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

 Score =  243 bits (622), Expect = 4e-83
 Identities = 73/160 (45%), Positives = 114/160 (71%), Gaps = 1/160 (0%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
            K+VL+GDSGVGK+ ++LRFV  +F    K T+G  F S+TI +     VK +IWDTAGQ
Sbjct: 1   FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDG-KKVKLQIWDTAGQ 59

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           ER+ ++   YYRGA  A++VYD+T+ +SF     W+ EL+++  P+I + LVGNK+DL +
Sbjct: 60  ERFRSITSSYYRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPNIPIILVGNKSDLED 119

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
           +R+V  ++  ++A++NG+ F ETSAKT +N+++ FE +A+
Sbjct: 120 ERQVSTEEAQQFAKENGLLFFETSAKTGENVDEAFESLAR 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|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score =  237 bits (608), Expect = 5e-81
 Identities = 77/162 (47%), Positives = 117/162 (72%), Gaps = 1/162 (0%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
            K++L+GDSGVGKS ++ RF  G+F    K T+G  F ++TI + D   VK +IWDTAGQ
Sbjct: 1   FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEV-DGKRVKLQIWDTAGQ 59

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           ER+ ++   YYRGA  A++VYDIT+ +SF   + W+KEL+++ SP++V+ LVGNK+DL E
Sbjct: 60  ERFRSITSSYYRGAVGALLVYDITNRESFENLENWLKELREYASPNVVIMLVGNKSDLEE 119

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           +R+V  ++   +AE++G+ F ETSAKT  N+ + FEE+A+ +
Sbjct: 120 QRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREI 161

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score =  213 bits (544), Expect = 3e-71
 Identities = 78/161 (48%), Positives = 110/161 (68%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VL+GDSGVGKS ++ RF R +F+  SK T+G  F ++TI + D  T+K +IWDTAGQE
Sbjct: 5   KIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQI-DGKTIKAQIWDTAGQE 63

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY A+   YYRGA  A++VYDIT   +F   + W+KEL+ H   +IV+ LVGNK+DL   
Sbjct: 64  RYRAITSAYYRGAVGALLVYDITKKSTFENVERWLKELRDHADSNIVIMLVGNKSDLRHL 123

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R VP ++   +AEKNG+ FIETSA    N+ + F+++   +
Sbjct: 124 RAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLLTEI 164

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

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

 Score =  204 bits (521), Expect = 7e-68
 Identities = 75/161 (46%), Positives = 110/161 (68%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV LGD  VGK+ I+ RF+   FD   + T+G  FLS+T+ + D T V+ ++WDTAGQE
Sbjct: 2   KLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKT-VRLQLWDTAGQE 60

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ +L P Y R ++VAVVVYDIT+  SF+    W+ +++     D+++ LVGNK DL +K
Sbjct: 61  RFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDK 120

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R+V  ++G + A++N   FIETSAK   N+ QLF++IA+ L
Sbjct: 121 RQVSTEEGEKKAKENNAMFIETSAKAGHNVKQLFKKIAQAL 161

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

 Score =  203 bits (518), Expect = 2e-67
 Identities = 74/162 (45%), Positives = 102/162 (62%), Gaps = 1/162 (0%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
            K+VLLG+  VGK+ +VLR+V  +F+   + T  ASF  +T+ +     +   IWDTAGQ
Sbjct: 1   FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKR-IDLAIWDTAGQ 59

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           ERY AL P+YYR A  A++VYDIT  DSF K + W+KEL++    +I + +VGNK DL  
Sbjct: 60  ERYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLER 119

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           +R V   +  EYA+  G    ETSAKT   I +LF  +AKR+
Sbjct: 120 QRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM 161

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

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

 Score =  192 bits (490), Expect = 4e-63
 Identities = 75/163 (46%), Positives = 104/163 (63%), Gaps = 3/163 (1%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K++L+GDSGVGKS ++LRF    FD     T+G  F  +T+ + D   VK  IWDTAGQ
Sbjct: 1   LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTV-DGKKVKLAIWDTAGQ 59

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHG-SPDIVMALVGNKADLH 152
           ER+  L   YYRGA   ++VYD+T  D+F+    W+ EL  +  +PD V  LVGNK D  
Sbjct: 60  ERFRTLTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGNKIDK- 118

Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           E REV  ++G ++A K+ M FIETSAKT   + Q FEE+ +++
Sbjct: 119 ENREVTREEGQKFARKHNMLFIETSAKTRIGVQQAFEELVEKI 161

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

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

 Score =  189 bits (483), Expect = 5e-62
 Identities = 73/161 (45%), Positives = 103/161 (63%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGKSC++LRF    F+P+   T+G  F  +TI L D   +K +IWDTAGQE
Sbjct: 5   KLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIEL-DGKKIKLQIWDTAGQE 63

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRGA   ++VYDIT   SF   + W++ + +H S D+   LVGNK D+ EK
Sbjct: 64  RFRTITTSYYRGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVERMLVGNKCDMEEK 123

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R V  ++G   A + G+ F+ETSAK   N+ + F  +AK +
Sbjct: 124 RVVSKEEGEALAREYGIKFLETSAKANINVEEAFLTLAKDI 164

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

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

 Score =  176 bits (448), Expect = 9e-57
 Identities = 71/161 (44%), Positives = 107/161 (66%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGKSC++LRF    +  +   T+G  F  +TI L D  TVK +IWDTAGQE
Sbjct: 4   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTVKLQIWDTAGQE 62

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRGA   ++VYD+T  +SFN  + W++E+ ++ S ++   LVGNK DL +K
Sbjct: 63  RFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDK 122

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           + V   +  E+A++ G+ F+ETSAK A N+ + F  +A+ +
Sbjct: 123 KVVDYTEAKEFADELGIPFLETSAKNATNVEEAFMTMAREI 163

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

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

 Score =  175 bits (445), Expect = 3e-56
 Identities = 67/159 (42%), Positives = 109/159 (68%), Gaps = 1/159 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K +++GD+GVGKSC++L+F   +F P   +T+G  F ++ I + D   +K +IWDTAGQE
Sbjct: 6   KYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITI-DGKQIKLQIWDTAGQE 64

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
            + ++   YYRGAA A++VYDIT  ++FN    W+++ ++H + ++ + L+GNK DL  +
Sbjct: 65  SFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESR 124

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
           REV  ++G  +A ++G+ F+ETSAKTA N+ + F   AK
Sbjct: 125 REVSYEEGEAFAREHGLIFMETSAKTASNVEEAFINTAK 163

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

 Score =  170 bits (432), Expect = 2e-54
 Identities = 69/162 (42%), Positives = 107/162 (66%), Gaps = 1/162 (0%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
            K +++G +G GKSC++ +F+  +F   S  T+G  F S+ + +    +VK +IWDTAGQ
Sbjct: 1   FKFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGG-KSVKLQIWDTAGQ 59

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           ER+ ++   YYRGAA A++VYDITS +SFN    W+ + +   SPDIV+ LVGNK DL +
Sbjct: 60  ERFRSVTRSYYRGAAGALLVYDITSRESFNALTNWLTDARTLASPDIVIILVGNKKDLED 119

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            REV   +   +A++NG+ F+ETSA T +N+ + F + A+ +
Sbjct: 120 DREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARSI 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|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score =  170 bits (431), Expect = 3e-54
 Identities = 67/161 (41%), Positives = 109/161 (67%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VL+G++GVGK+C+V RF +G F P    T+G  F+ +T+ ++    +K +IWDTAGQE
Sbjct: 9   KIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIK-GEKIKLQIWDTAGQE 67

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ ++   YYR A   ++ YDIT  +SF     W++E++++ +  ++  LVGNK DL E+
Sbjct: 68  RFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAER 127

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           REV  Q   E+++   M+++ETSAK +DN+ +LF ++A RL
Sbjct: 128 REVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLACRL 168

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

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

 Score =  167 bits (425), Expect = 3e-53
 Identities = 67/162 (41%), Positives = 101/162 (62%), Gaps = 2/162 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++L+GDS VGK+C+V RF  G F      T+G  F  +T+ +     VK +IWDTAGQE
Sbjct: 5   KIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEI-QGKRVKLQIWDTAGQE 63

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYR A  A++ YDIT   SF    +W++E++K+G+ ++V+ L+GNK DL E+
Sbjct: 64  RFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQ 123

Query: 155 REVPAQDGIEYAEKNGMFF-IETSAKTADNINQLFEEIAKRL 195
           REV  ++    AE  G+   +ETSAK + N+ + F  +A  L
Sbjct: 124 REVLFEEACTLAEHYGILAVLETSAKESSNVEEAFLLMATEL 165

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

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

 Score =  167 bits (425), Expect = 1e-52
 Identities = 77/157 (49%), Positives = 107/157 (68%), Gaps = 1/157 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VL+GDSGVGKS I+ RF R +F   SK T+G  F ++T+ + +  TVK +IWDTAGQE
Sbjct: 14  KIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQV-EGKTVKAQIWDTAGQE 72

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY A+   YYRGA  A++VYDIT   +F+  Q W++EL+ H   +IV+ + GNK+DL+  
Sbjct: 73  RYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHL 132

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
           R V  +DG   AEK G+ F+ETSA  A N+ + F+ I
Sbjct: 133 RSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTI 169

Length = 216

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

 Score =  163 bits (416), Expect = 7e-52
 Identities = 63/162 (38%), Positives = 96/162 (59%), Gaps = 3/162 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV+LG  GVGKS + +RFV G+F      T+  S+  + I + D  T   +I DTAGQE
Sbjct: 1   KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTIEDSY-RKQIVV-DGETYTLDILDTAGQE 58

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHE 153
            ++A+   Y R     ++VY ITS +SF + +   ++ L+     D+ + LVGNK DL  
Sbjct: 59  EFSAMRDQYIRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDVPIVLVGNKCDLEN 118

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           +R+V  ++G   AE+ G  F+ETSAKT  NI++LF  + + +
Sbjct: 119 ERQVSTEEGEALAEEWGCPFLETSAKTNINIDELFNTLVREI 160

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

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

 Score =  163 bits (413), Expect = 2e-51
 Identities = 65/161 (40%), Positives = 105/161 (65%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K +++GD GVGKSC++ +F   +F      T+G  F ++ I +     +K +IWDTAGQE
Sbjct: 4   KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQK-IKLQIWDTAGQE 62

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ A+   YYRGAA A++VYDIT   ++N    W+ + +   +P+ V+ L+GNKADL  +
Sbjct: 63  RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQ 122

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R+V  ++  ++A++NG+ F+E SAKT +N+   F E AK++
Sbjct: 123 RDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAKKI 163

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

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

 Score =  156 bits (396), Expect = 3e-48
 Identities = 64/161 (39%), Positives = 112/161 (69%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K +++GD+GVGKSC++L+F   +F P   +T+G  F ++ I + D+  +K +IWDTAGQE
Sbjct: 8   KYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITI-DNKPIKLQIWDTAGQE 66

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
            + ++   YYRGAA A++VYDIT  ++FN    W+++ ++H + ++ + L+GNK DL  +
Sbjct: 67  SFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHR 126

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R V  ++G ++A+++G+ F+E SAKTA N+ + F + A ++
Sbjct: 127 RAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKI 167

Length = 210

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

 Score =  152 bits (385), Expect = 1e-46
 Identities = 63/162 (38%), Positives = 102/162 (62%), Gaps = 1/162 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           +L+++GDS VGKS ++ RF  G+F   S  TVG  F S+ I ++    +K ++WDTAGQE
Sbjct: 4   RLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQE 63

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPD-IVMALVGNKADLHE 153
           R+ ++   YYR +   ++V+DIT+ +SF     W++E + H  P   V  LVG+K DL  
Sbjct: 64  RFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLES 123

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           +R+V  ++  + A+  GM +IETSA+T DN+ + FE + + +
Sbjct: 124 QRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLTQEI 165

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

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

 Score =  149 bits (378), Expect = 5e-46
 Identities = 67/164 (40%), Positives = 101/164 (61%), Gaps = 6/164 (3%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+++LGDSGVGK+ ++ ++V  +F    K T+GA FL++ + + D   V  +IWDTAGQE
Sbjct: 2   KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTV-DDRLVTLQIWDTAGQE 60

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSP----DIVMALVGNKAD 150
           R+ +L   +YRGA   V+VYD+T+P SF     W  E     SP    +    ++GNK D
Sbjct: 61  RFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFVVLGNKID 120

Query: 151 LHEKREVPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEEIAK 193
           L EKR+V  +   ++ +  G + + ETSAK A N++Q FE IA+
Sbjct: 121 LEEKRQVSTKKAQQWCKSKGNIPYFETSAKEAINVDQAFETIAR 164

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

 Score =  145 bits (367), Expect = 3e-44
 Identities = 65/165 (39%), Positives = 104/165 (63%), Gaps = 7/165 (4%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQF-DPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           VK+V+LG   VGK+ +V R+V  +F     + T+GA+F+++ + + +   V   IWDTAG
Sbjct: 1   VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGE-RVVTLGIWDTAG 59

Query: 93  QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
            ERY A++ +YYRGA  A+V YD+T   SF +A++WVKELQ        + L G K+DL 
Sbjct: 60  SERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNL-EEHCKIYLCGTKSDLI 118

Query: 153 EK----REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
           E+    R+V   D  ++A++      ETS+KT  N+++LF+++A+
Sbjct: 119 EQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKVAE 163

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

 Score =  143 bits (363), Expect = 3e-43
 Identities = 64/186 (34%), Positives = 97/186 (52%), Gaps = 19/186 (10%)

Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
                K+V+LGD GVGK+ ++ R V  +F      T+G    ++TI       +K ++WD
Sbjct: 2   FMKEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTI-EPYRRNIKLQLWD 60

Query: 90  TAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNK 148
           TAGQE Y +L P YYRGA   ++VYD T  +S ++  + W++EL++    D+ + LVGNK
Sbjct: 61  TAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNK 120

Query: 149 ADL------------HEKREVPAQDGIEYAEKNGMF---FIETSAK--TADNINQLFEEI 191
            DL               REV        A    +     +ETSAK  T  N+N+LF+E+
Sbjct: 121 IDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKEL 180

Query: 192 AKRLPR 197
            ++L  
Sbjct: 181 LRKLLE 186

Length = 219

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

 Score =  140 bits (355), Expect = 2e-42
 Identities = 68/162 (41%), Positives = 106/162 (65%), Gaps = 2/162 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTS-KVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           K++L+GDSGVGK+C+++RF  G F   S   TVG  F ++ + + D   VK +IWDTAGQ
Sbjct: 2   KVMLVGDSGVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVTV-DGVKVKLQIWDTAGQ 60

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           ER+ ++   YYR A   +++YD+T+  SF+  + W+ E+ ++   D+V+ L+GNKAD+  
Sbjct: 61  ERFRSVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVVIMLLGNKADMSG 120

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           +R V  +DG   A++ G+ F+ETSAKT  N+   F  +AK L
Sbjct: 121 ERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKEL 162

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

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

 Score =  135 bits (341), Expect = 1e-40
 Identities = 64/158 (40%), Positives = 95/158 (60%), Gaps = 1/158 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           +L+L+GDSGVGK+C++ RF   +F  +   T+G  F  +TI + D   V+ +IWDTAGQE
Sbjct: 2   RLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEV-DGIKVRIQIWDTAGQE 60

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY  +   YYR A    +VYDI+S  S+     WV ++ ++    +   L+GNKAD  +K
Sbjct: 61  RYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQK 120

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA 192
           R+V  + G + A++ GM F ETSA T  NI + F  + 
Sbjct: 121 RQVGDEQGNKLAKEYGMDFFETSACTNKNIKESFTRLT 158

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

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

 Score =  134 bits (340), Expect = 2e-40
 Identities = 60/166 (36%), Positives = 98/166 (59%), Gaps = 6/166 (3%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++GDS VGK+C+  RF  G+F   ++ T+G  F  +T+ + D   +K ++WDTAGQE
Sbjct: 4   KIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEI-DGERIKVQLWDTAGQE 62

Query: 95  RY-AALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHG-SPDIVMALVGNKADLH 152
           R+  ++   YYR     V VYD+T+  SF+    W++E ++H    ++   LVGNK DL 
Sbjct: 63  RFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLR 122

Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAK---TADNINQLFEEIAKRL 195
           E+ +VP      +A+ + M   ETSAK     D++  +F  +A +L
Sbjct: 123 EQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIFMTLAHKL 168

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

 Score =  133 bits (337), Expect = 5e-40
 Identities = 61/157 (38%), Positives = 94/157 (59%), Gaps = 1/157 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+++G+S VGK+  + R+    F      TVG  F  +T+   D   +K +IWDTAGQE
Sbjct: 3   KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKR-IKLQIWDTAGQE 61

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY  +   YYRGA   +++YDIT+ +SFN  Q W  +++ +   +  + LVGNK D+ ++
Sbjct: 62  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDE 121

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
           R V A+ G + A++ G  F E SAK   N+ Q+FE +
Sbjct: 122 RVVSAERGRQLADQLGFEFFEASAKENINVKQVFERL 158

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

 Score =  133 bits (336), Expect = 9e-40
 Identities = 59/169 (34%), Positives = 91/169 (53%), Gaps = 11/169 (6%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQF----DPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           KLV+LG  GVGKS + ++FV+G F    DPT    +  S+  Q     D      +I DT
Sbjct: 4   KLVVLGGGGVGKSALTIQFVQGHFVDEYDPT----IEDSYRKQIEI--DGEVCLLDILDT 57

Query: 91  AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKA 149
           AGQE ++A+   Y R     ++VY IT   SF +   +  + L+     D+ + LVGNK 
Sbjct: 58  AGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIAKFREQILRVKDRDDVPIVLVGNKC 117

Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRP 198
           DL  +R V  ++G E A + G  F+ETSAK   N+++ F ++ + + + 
Sbjct: 118 DLENERVVSTEEGKELARQWGCPFLETSAKERINVDEAFYDLVREIRKS 166

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

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

 Score =  132 bits (335), Expect = 1e-39
 Identities = 57/162 (35%), Positives = 90/162 (55%), Gaps = 11/162 (6%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQF----DPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           KLV+LG  GVGKS + ++F++G F    DPT    +  S+  Q     D      +I DT
Sbjct: 2   KLVVLGSGGVGKSALTIQFIQGHFVDDYDPT----IEDSYRKQIEI--DGEVCLLDILDT 55

Query: 91  AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKA 149
           AGQE ++A+   Y R     ++VY IT   SF + + + +++ +     D+ + LVGNK 
Sbjct: 56  AGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKC 115

Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
           DL  +R V  ++G E A + G  F+ETSAK   N+++ F ++
Sbjct: 116 DLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDL 157

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

 Score =  130 bits (328), Expect = 1e-38
 Identities = 57/160 (35%), Positives = 89/160 (55%), Gaps = 2/160 (1%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIAL-QDSTTVKFEIWDTAG 92
           +K++++G+  VGKS ++ RFV+G F    K T+G  FL + I L Q    V+  +WDTAG
Sbjct: 1   IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAG 60

Query: 93  QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           QE + A+   YYRGA   ++V+  T  +SF   + W KE  +    DI M LV  K DL 
Sbjct: 61  QEEFDAITKAYYRGAQACILVFSTTDRESFEAIESW-KEKVEAECGDIPMVLVQTKIDLL 119

Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA 192
           ++  +  ++    A++  +    TS K   N+ +LFE +A
Sbjct: 120 DQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLA 159

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

 Score =  128 bits (323), Expect = 3e-37
 Identities = 59/170 (34%), Positives = 94/170 (55%), Gaps = 12/170 (7%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++GD GVGK+ I+ R+V G F    K T+G  F  + I    +T V+ ++WD AGQE
Sbjct: 2   KVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQE 61

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-----HGSPDIVMALVGNKA 149
           R+  +  +YY+GA  A++V+D+T P +F     W  +L       +G P I   L+ NK 
Sbjct: 62  RFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEP-IPALLLANKC 120

Query: 150 DLHEKRE-VPAQDGIEYAEKNGMFFI---ETSAKTADNINQLFEEIAKRL 195
           DL ++R     +   ++ ++NG  FI   ETSAK   NI +    + K +
Sbjct: 121 DLKKERLAKDPEQMDQFCKENG--FIGWFETSAKENINIEEAMRFLVKNI 168

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|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score =  125 bits (315), Expect = 1e-36
 Identities = 61/139 (43%), Positives = 91/139 (65%), Gaps = 1/139 (0%)

Query: 58  FDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDIT 117
           FD   + T+G  FLS+T+ L D   V+ ++WDTAGQER+ +L P Y R +A A+VVYDIT
Sbjct: 5   FDNNYQSTIGIDFLSKTLYL-DEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDIT 63

Query: 118 SPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETS 177
           +  SF     W++++      D+++ALVGNK DL + R+V  ++G++ A++    F ETS
Sbjct: 64  NRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETS 123

Query: 178 AKTADNINQLFEEIAKRLP 196
           AK   NI  LF++IA +LP
Sbjct: 124 AKAGHNIKVLFKKIAAKLP 142

Length = 176

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

 Score =  125 bits (316), Expect = 2e-36
 Identities = 62/157 (39%), Positives = 98/157 (62%), Gaps = 2/157 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+++GDSGVGKS ++LRF    F  +   T+G  F  +T+ + +   VK +IWDTAGQE
Sbjct: 8   KLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEI-NGERVKLQIWDTAGQE 66

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG    +VVYD+T+ +SF   + W++E++++   D+   LVGNK D  E+
Sbjct: 67  RFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQN-CDDVCKVLVGNKNDDPER 125

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
           + V  +D  ++A + G+   ETSAK   N+ ++F  I
Sbjct: 126 KVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCI 162

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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score =  125 bits (316), Expect = 2e-36
 Identities = 66/175 (37%), Positives = 108/175 (61%), Gaps = 4/175 (2%)

Query: 23  NAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTT 82
           ++G S   +L  K++L+GDSGVGKS +++ F+    +  +  T+G  F  + + +     
Sbjct: 4   SSGQSSGYDLSFKILLIGDSGVGKSSLLVSFISSSVEDLAP-TIGVDFKIKQLTV-GGKR 61

Query: 83  VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGS-PDI 140
           +K  IWDTAGQER+  L   YYR A   ++VYD+T  ++F N +  W KE++ + +  D 
Sbjct: 62  LKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDC 121

Query: 141 VMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           V  LVGNK D   +R+V  ++G+  A+++G  F+E SAKT +N+ Q FEE+A ++
Sbjct: 122 VKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEELALKI 176

Length = 211

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

 Score =  124 bits (313), Expect = 3e-36
 Identities = 52/175 (29%), Positives = 93/175 (53%), Gaps = 20/175 (11%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGASFLSQTIALQ-DSTTVKFEIWDTA 91
           +K+V++GD  VGK+C+++ +   +F PT  V TV   F + +  +  D   V   +WDTA
Sbjct: 1   IKIVVVGDGAVGKTCLLISYTTNKF-PTEYVPTV---FDNYSANVTVDGKQVNLGLWDTA 56

Query: 92  GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQY-WVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y    V ++ + + SP SF   +  W  E++ +  P++ + LVG K D
Sbjct: 57  GQEEYDRLRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPEIKHY-CPNVPIILVGTKID 115

Query: 151 LHEKRE-----------VPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEEIAK 193
           L +              +  ++G + A++ G + ++E SA T + + ++F+E  +
Sbjct: 116 LRDDGNTLKKLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQEGLKEVFDEAIR 170

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

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

 Score =  122 bits (308), Expect = 2e-35
 Identities = 66/178 (37%), Positives = 101/178 (56%), Gaps = 18/178 (10%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTT---------VK 84
           +KL+ LGDSGVGK+  + R+   +F+P    TVG  F  + +                V 
Sbjct: 5   IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKAFRVH 64

Query: 85  FEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHG---SPDIV 141
            ++WDTAGQER+ +L   ++R A   ++++D+TS  SF   + W+ +LQ H    +PDIV
Sbjct: 65  LQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCENPDIV 124

Query: 142 MALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQ----LFEEIAKRL 195
             L+GNKADL ++REV  +   E A+K G+ + ETSA T  N+ +    L + I KR+
Sbjct: 125 --LIGNKADLPDQREVSERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM 180

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

 Score =  117 bits (294), Expect = 4e-33
 Identities = 62/173 (35%), Positives = 102/173 (58%), Gaps = 6/173 (3%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           +++++G  GVGK+ ++ RF    F    K TVG  F  +T+ L+    ++ +IWDTAGQE
Sbjct: 2   QVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELR-GKKIRLQIWDTAGQE 60

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ ++   YYR A   ++VYDIT  ++F+    W+K + K+ S D  + LVGNK D    
Sbjct: 61  RFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETD 120

Query: 155 REVPAQDGIEYAEK-NGMFFIETSAKTADNINQLF----EEIAKRLPRPSPSS 202
           RE+  Q G ++A++  GM F E SAK   N++++F    ++I K++P     +
Sbjct: 121 REITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKMPLDILRN 173

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

 Score =  117 bits (294), Expect = 4e-33
 Identities = 57/177 (32%), Positives = 89/177 (50%), Gaps = 22/177 (12%)

Query: 31  NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGASFLSQTIALQDST--TVKFEI 87
           +L+VK+V++GD G GK+C+++ + +G F P   V TV   F +    LQ      ++  +
Sbjct: 1   DLKVKIVVVGDGGCGKTCLLMVYAQGSF-PEEYVPTV---FENYVTTLQVPNGKIIELAL 56

Query: 88  WDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVG 146
           WDTAGQE Y  L PL Y    V ++ Y + +P S  N    W  E+  H  P   + LVG
Sbjct: 57  WDTAGQEDYDRLRPLSYPDVDVILICYSVDNPTSLDNVEDKWYPEVN-HFCPGTPIVLVG 115

Query: 147 NKADLHEKRE------------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFEE 190
            K DL + +             V  + G   A+  G   +IE SAK  +N++++F+ 
Sbjct: 116 LKTDLRKDKNSVSKLRAQGLEPVTPEQGESVAKSIGAVAYIECSAKLMENVDEVFDA 172

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

 Score =  114 bits (288), Expect = 1e-32
 Identities = 50/163 (30%), Positives = 92/163 (56%), Gaps = 6/163 (3%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K++ +G+SGVGKSCI+ R+  G+F      T+G  +  + +++++   V+   +D +G 
Sbjct: 1   IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKE-VRVNFFDLSGH 59

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSP-----DIVMALVGNK 148
             Y  +   +Y+     ++VYD+T   SF     W+KE+++ G P     +IV+ +  NK
Sbjct: 60  PEYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANK 119

Query: 149 ADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
            DL + R V   +G  +AE  G  + ETSA T + +N++F+ +
Sbjct: 120 IDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQTL 162

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

 Score =  114 bits (288), Expect = 5e-32
 Identities = 60/165 (36%), Positives = 87/165 (52%), Gaps = 3/165 (1%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K+V+LGD   GK+ ++ RF +  F  + K T+G  F S+ I L  S  V  ++WD  GQ
Sbjct: 1   IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQ 60

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYW---VKELQKHGSPDIVMALVGNKAD 150
           +    +   Y  GA    +VYDIT+  SF   + W   VK++ +       M LVGNK D
Sbjct: 61  QIGGKMLDKYIYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTD 120

Query: 151 LHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           L   R+V A+    +A++N M  I  SAKT D +   F+ IA  L
Sbjct: 121 LEHNRQVTAEKHARFAQENDMESIFVSAKTGDRVFLCFQRIAAEL 165

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

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

 Score =  113 bits (283), Expect = 9e-32
 Identities = 58/170 (34%), Positives = 93/170 (54%), Gaps = 7/170 (4%)

Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K+  +K++LLGD GVGKS ++ R+V  +FD     T+G  FL++ + + D   V  +IWD
Sbjct: 2   KSSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV-DGHFVTLQIWD 60

Query: 90  TAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPD----IVMALV 145
           TAGQER+ +L   +YRG+   ++ + +    SF     W KE   +            ++
Sbjct: 61  TAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVIL 120

Query: 146 GNKADLHEKREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKR 194
           GNK D+  +R+V  ++   +   NG + + ETSAK A N+   FEE  +R
Sbjct: 121 GNKIDI-PERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRR 169

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

 Score =  112 bits (281), Expect = 2e-31
 Identities = 50/161 (31%), Positives = 87/161 (54%), Gaps = 4/161 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLVL+GD G GK+  V R + G+F+     T+G   +       +   ++F +WDTAGQE
Sbjct: 2   KLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLDFHTNRGKIRFNVWDTAGQE 60

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           ++  L   YY     A++++D+TS  ++     W ++L +    +I + L GNK D+ ++
Sbjct: 61  KFGGLRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDLVRV-CENIPIVLCGNKVDIKDR 119

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           +  P Q  I +  K  + + E SAK+  N  + F  +A++L
Sbjct: 120 KVKPKQ--ITFHRKKNLQYYEISAKSNYNFEKPFLWLARKL 158

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

 Score =  111 bits (281), Expect = 2e-31
 Identities = 52/171 (30%), Positives = 86/171 (50%), Gaps = 21/171 (12%)

Query: 36  LVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGASFLSQTIALQ-DSTTVKFEIWDTAGQ 93
           LV++GD  VGK+C+++ +    F P   V TV   F + +  ++ D   V+  +WDTAGQ
Sbjct: 1   LVVVGDGAVGKTCLLIVYTTNAF-PEDYVPTV---FENYSADVEVDGKPVELGLWDTAGQ 56

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQY-WVKELQKHGSPDIVMALVGNKADL- 151
           E Y  L PL Y    V ++ + + SP SF   +  W  E++    P++ + LVG K DL 
Sbjct: 57  EDYDRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHF-CPNVPIILVGTKLDLR 115

Query: 152 -----HEKREVPAQDGIEYAEKNGMF-------FIETSAKTADNINQLFEE 190
                 E+     Q+ + Y +   +        ++E SA T + + ++FEE
Sbjct: 116 NDKSTLEELSKKKQEPVTYEQGQALAKRIGAVKYLECSALTQEGVREVFEE 166

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

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

 Score =  110 bits (276), Expect = 1e-30
 Identities = 64/175 (36%), Positives = 94/175 (53%), Gaps = 8/175 (4%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K +L+GDS VGK  I+     G  +      +G  + + TI L D   VK ++WDT+GQ
Sbjct: 7   LKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILL-DGRRVKLQLWDTSGQ 65

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
            R+  +   Y RGA   ++VYDIT+  SF+    W+KE+ +H +P +   LVGN+  L  
Sbjct: 66  GRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEH-APGVPKILVGNRLHLAF 124

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL------PRPSPSS 202
           KR+V  +    YAE+NGM F E S     NI + F E+A+ +      P  SP  
Sbjct: 125 KRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTELARIVLMRHGRPPQSPPQ 179

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

 Score =  108 bits (273), Expect = 2e-30
 Identities = 52/162 (32%), Positives = 82/162 (50%), Gaps = 5/162 (3%)

Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTS-KVTVGASFLSQTIALQDSTTVKFEIWDTA 91
            +K+V++GD  VGKS ++ R +  +   T  K     ++++  I  +D  T KF + DTA
Sbjct: 1   EIKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIE-EDGKTYKFNLLDTA 59

Query: 92  GQERYAALAPLYYRGAAVAVVVYDITSP--DSFNKAQYWVKELQKHGSPDIVMALVGNKA 149
           GQE Y A+  LYYR    ++ V+DI     D     +   KE+  H    + + LVGNK 
Sbjct: 60  GQEDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKI 119

Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
           DL    ++       +A+ NG   I  SA+T  NI+  F+ +
Sbjct: 120 DL-RDAKLKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIV 160

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

 Score =  108 bits (271), Expect = 4e-30
 Identities = 61/164 (37%), Positives = 93/164 (56%), Gaps = 3/164 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV+LG  GVGKS + ++FV+G F      T+  S+  Q     D      EI DTAG E
Sbjct: 3   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEV--DGQQCMLEILDTAGTE 60

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHE 153
           ++ A+  LY +     V+VY IT+  +FN  Q   ++ L+   + D+ M LVGNK DL +
Sbjct: 61  QFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 120

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           +R V  + G   A + G  F+ETSAK   N+N++F ++ +++ R
Sbjct: 121 ERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQINR 164

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

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

 Score =  107 bits (270), Expect = 5e-30
 Identities = 52/166 (31%), Positives = 81/166 (48%), Gaps = 14/166 (8%)

Query: 37  VLLGDSGVGKSCIVLRFVRGQFDPTSKV---TVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           V++G  GVGKS ++   + G+    S V   T       + +   D   VK  + DT G 
Sbjct: 1   VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVKEL---DKGKVKLVLVDTPGL 57

Query: 94  ERY-----AALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNK 148
           + +       LA L  RGA + ++V D T  +S   A+     L++     I + LVGNK
Sbjct: 58  DEFGGLGREELARLLLRGADLILLVVDSTDRESEEDAKL--LILRRLRKEGIPIILVGNK 115

Query: 149 ADLHEKREVPAQD-GIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
            DL E+REV       E A+  G+   E SAKT + +++LFE++ +
Sbjct: 116 IDLLEEREVEELLRLEELAKILGVPVFEVSAKTGEGVDELFEKLIE 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|206708 cd04136, Rap_like, Rap-like family consists of Rap1, Rap2 and RSR1

 Score =  106 bits (266), Expect = 2e-29
 Identities = 60/167 (35%), Positives = 95/167 (56%), Gaps = 12/167 (7%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQF----DPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           KLV+LG  GVGKS + ++FV+G F    DPT +         + I + D      EI DT
Sbjct: 3   KLVVLGSGGVGKSALTVQFVQGIFVDKYDPTIE-----DSYRKQIEV-DCQQCMLEILDT 56

Query: 91  AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKA 149
           AG E++ A+  LY +      +VY IT+  SFN  Q   ++ L+   + D+ M LVGNK 
Sbjct: 57  AGTEQFTAMRDLYIKNGQGFALVYSITAQQSFNDLQDLREQILRVKDTEDVPMILVGNKC 116

Query: 150 DLHEKREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKRL 195
           DL ++R V  ++G   A + G   F+ETSAK+  N++++F ++ +++
Sbjct: 117 DLEDERVVSKEEGQNLARQWGNCPFLETSAKSKINVDEIFYDLVRQI 163

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

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

 Score =  105 bits (264), Expect = 8e-29
 Identities = 63/171 (36%), Positives = 91/171 (53%), Gaps = 17/171 (9%)

Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           R KLV++GD   GK+C+++ F + QF      TV  ++++      D   V+  +WDTAG
Sbjct: 1   RKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTAG 58

Query: 93  QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQY-WVKELQKHGSPDIVMALVGNKADL 151
           QE Y  L PL Y    V ++ + I SPDS       W  E+ KH  P++ + LVGNK DL
Sbjct: 59  QEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDL 117

Query: 152 ----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
               H  RE        V  ++G   AEK G F ++E SAKT + + ++FE
Sbjct: 118 RNDEHTIRELAKMKQEPVKPEEGRAMAEKIGAFGYLECSAKTKEGVREVFE 168

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

 Score =  104 bits (262), Expect = 1e-28
 Identities = 52/160 (32%), Positives = 88/160 (55%), Gaps = 3/160 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV++G  GVGKS + ++F++  F      T+  S+  Q     D    + +I DTAGQE
Sbjct: 4   KLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCEI--DGQWARLDILDTAGQE 61

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHE 153
            ++A+   Y R     ++V+ +T   SF +   +  + L+     +  M LVGNKADL  
Sbjct: 62  EFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEH 121

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
           +R+V  ++G E A +  + +IETSAK   N+++ F ++ +
Sbjct: 122 QRQVSREEGQELARQLKIPYIETSAKDRVNVDKAFHDLVR 161

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

 Score =  104 bits (261), Expect = 2e-28
 Identities = 56/164 (34%), Positives = 88/164 (53%), Gaps = 5/164 (3%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV+LGD GVGK+ + ++     F  T   T+  S+  Q +   D      E+ DTAGQE
Sbjct: 1   KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRKQVVV--DGQPCMLEVLDTAGQE 58

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK---HGSPDIVMALVGNKADL 151
            Y AL   + R     ++VY ITS  +F + + + +++Q+     + D+ + +VGNK D 
Sbjct: 59  EYTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDK 118

Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
             +REV  ++G   A + G  FIE SAKT  N+ + F  + + L
Sbjct: 119 VYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRAL 162

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

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

 Score =  102 bits (257), Expect = 5e-28
 Identities = 55/165 (33%), Positives = 98/165 (59%), Gaps = 3/165 (1%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
            K++++G  GVGKS + L+F+  +F    + T   S+  + + L D   V+  I DTAGQ
Sbjct: 1   HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVL-DGEEVQLNILDTAGQ 58

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNK-AQYWVKELQKHGSPDIVMALVGNKADLH 152
           E YAA+   Y+R     ++V+ IT  +SF   A++  + L+     ++ + LVGNK DL 
Sbjct: 59  EDYAAIRDNYFRSGEGFLLVFSITDMESFTALAEFREQILRVKEDDNVPLLLVGNKCDLE 118

Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           +KR+V  ++    AE+ G+ ++ETSAKT  N++++F ++ + + +
Sbjct: 119 DKRQVSVEEAANLAEQWGVNYVETSAKTRANVDKVFFDLVREIRQ 163

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

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

 Score =  103 bits (259), Expect = 5e-28
 Identities = 63/170 (37%), Positives = 91/170 (53%), Gaps = 19/170 (11%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQF----DPTSKVTVGASFLSQTIAL--QDSTTVKFEIW 88
           K+ +LG   VGKS + ++FV G F     PT + T      S+ I    Q+      EI 
Sbjct: 3   KIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENT-----FSKIITYKGQEYHL---EIV 54

Query: 89  DTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQY-WVKELQKHGSPDIVMALVGN 147
           DTAGQ+ Y+ L   Y  G    ++VY +TS  SF   +  + K L   G   + + LVGN
Sbjct: 55  DTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGN 114

Query: 148 KADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE----EIAK 193
           K+DLH +R+V A++G + AE  G  F+E+SAK  +N+ + FE    EI K
Sbjct: 115 KSDLHMERQVSAEEGKKLAESWGAAFLESSAKENENVEEAFELLIEEIEK 164

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|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score =  102 bits (256), Expect = 9e-28
 Identities = 55/163 (33%), Positives = 96/163 (58%), Gaps = 4/163 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+V+LG  GVGKS + ++FV+  F  +   T+  S+  Q + + D      EI DTAG E
Sbjct: 3   KIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYRKQ-VEI-DGRQCDLEILDTAGTE 60

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHE 153
           ++ A+  LY +     ++VY +TS  S N+     ++ L+   S ++ M LVGNKADL +
Sbjct: 61  QFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLED 120

Query: 154 KREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKRL 195
            R+V  +DG+  +++ G   F ETSA+   N++++F ++ +++
Sbjct: 121 DRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQI 163

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

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

 Score =  101 bits (254), Expect = 1e-27
 Identities = 52/160 (32%), Positives = 83/160 (51%), Gaps = 5/160 (3%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           VK++LLGDS VGKS +V RF+   ++P    T   +      A  +  T+  + WDTAGQ
Sbjct: 1   VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHN-AKFEGKTILVDFWDTAGQ 59

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           ER+  +   YY  A   ++V+D+T   ++     W +EL+++  P+I   +V NK DL  
Sbjct: 60  ERFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREY-RPEIPCIVVANKIDLDP 118

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
                 Q    +AEK+ +     SA    N+ +LF++  K
Sbjct: 119 S---VTQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIK 155

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

 Score =  101 bits (254), Expect = 1e-27
 Identities = 60/166 (36%), Positives = 95/166 (57%), Gaps = 11/166 (6%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQF----DPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           K+V+LG  GVGKS + ++FV G F    DPT +      F  + I +  S +V  EI DT
Sbjct: 3   KVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-----DFYRKEIEVDSSPSV-LEILDT 56

Query: 91  AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKA 149
           AG E++A++  LY +     +VVY + +  +F   +    ++ +  G   + + LVGNK 
Sbjct: 57  AGTEQFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKV 116

Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           DL  +REV + +G   AE+ G  F+ETSAK+   +N+LF EI +++
Sbjct: 117 DLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIVRQM 162

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

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

 Score =  101 bits (253), Expect = 2e-27
 Identities = 57/159 (35%), Positives = 82/159 (51%), Gaps = 12/159 (7%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQF----DPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           KLV++G  GVGKS + ++ ++  F    DPT    +  S+  Q +   D  T   +I DT
Sbjct: 3   KLVVVGAGGVGKSALTIQLIQNHFVDEYDPT----IEDSYRKQVVI--DGETCLLDILDT 56

Query: 91  AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNK-AQYWVKELQKHGSPDIVMALVGNKA 149
           AGQE Y+A+   Y R     + V+ I S  SF     Y  +  +   S D+ M LVGNK 
Sbjct: 57  AGQEEYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKC 116

Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF 188
           DL   R V  + G + A+  G+ +IETSAKT   + + F
Sbjct: 117 DL-AARTVSTRQGQDLAKSYGIPYIETSAKTRQGVEEAF 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|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score =  101 bits (254), Expect = 3e-27
 Identities = 64/172 (37%), Positives = 93/172 (54%), Gaps = 7/172 (4%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV++G  GVGKS + ++F++  F      T+  S+  Q +   D  T   +I DTAGQE
Sbjct: 7   KLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYRKQCVI--DEETCLLDILDTAGQE 64

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHE 153
            Y+A+   Y R     + VY ITS  SF +   + +++ +    D V M LVGNK DL  
Sbjct: 65  EYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDS 124

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF----EEIAKRLPRPSPS 201
           +R+V   +G E A+  G+ F+ETSAK   N+++ F     EI K L    PS
Sbjct: 125 ERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREIRKYLKEDMPS 176

Length = 189

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

 Score =  101 bits (253), Expect = 3e-27
 Identities = 54/164 (32%), Positives = 83/164 (50%), Gaps = 6/164 (3%)

Query: 35  KLVLLGDSGVGKSCIVLRFVR--GQFDPTSKVTVGASFLSQTIAL-QDSTTVKFEIWDTA 91
           +  ++GD  VGKS +V  F      F     +T G   + +T+ +   S +V+  I+D+A
Sbjct: 2   QCAVVGDPAVGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPDTSDSVELFIFDSA 61

Query: 92  GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMA--LVGNKA 149
           GQE ++ +    +   AV  VVYD+T+  SFN    W+  ++ H S  +     LVGNK 
Sbjct: 62  GQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSRWINRVRTH-SHGLHTPGVLVGNKC 120

Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
           DL ++REV A      A+ N + F ETSAK        F  +A+
Sbjct: 121 DLTDRREVDAAQAQALAQANTLKFYETSAKEGVGYEAPFLSLAR 164

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

 Score = 99.6 bits (248), Expect = 1e-26
 Identities = 52/161 (32%), Positives = 86/161 (53%), Gaps = 4/161 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++GD  VGK+C++ RF +  FD   K T+G  F  +   +        ++WDTAGQE
Sbjct: 2   KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVL-GVPFSLQLWDTAGQE 60

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSP-DIVMALVGNKADLH- 152
           R+  +A  YYRGA   ++V+D+T   S    + W+++  K   P  +++ LVG K DL  
Sbjct: 61  RFKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSS 120

Query: 153 -EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA 192
             +  +  QD I+ A +    +   SA T +N+   F  +A
Sbjct: 121 PAQYALMEQDAIKLAREMKAEYWAVSALTGENVRDFFFRVA 161

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

 Score = 97.4 bits (243), Expect = 6e-26
 Identities = 38/161 (23%), Positives = 72/161 (44%), Gaps = 1/161 (0%)

Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
             KL+L+G  GVGK+ +  + +  +FD     T G +     I   +   ++  +WD  G
Sbjct: 1   EAKLMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDWKIPAPERKKIRLNVWDFGG 60

Query: 93  QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           QE Y A    +    ++ ++V+D+ + D  ++  YW+++++  G    V+ LVG   D  
Sbjct: 61  QEIYHATHQFFLTSRSLYLLVFDLRTGDEVSRVPYWLRQIKAFGGVSPVI-LVGTHIDES 119

Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
              ++  +   +            S K    I +L + IAK
Sbjct: 120 CDEDILKKALNKKFPAIINDIHFVSCKNGKGIAELKKAIAK 160

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

 Score = 97.1 bits (242), Expect = 4e-25
 Identities = 51/161 (31%), Positives = 88/161 (54%), Gaps = 4/161 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GD GVGK+  V R + G+F+     T+G   +       +   + F +WDTAGQE
Sbjct: 11  KLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVE-VHPLKFYTNCGPICFNVWDTAGQE 69

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           ++  L   YY     A++++D+TS  ++     W +++ +     I + LVGNK D+ + 
Sbjct: 70  KFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVCEN-IPIVLVGNKVDVKD- 127

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R+V A+  I +  K  + + + SAK+  N  + F  +A+RL
Sbjct: 128 RQVKARQ-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARRL 167

Length = 215

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

 Score = 93.4 bits (232), Expect = 8e-24
 Identities = 58/192 (30%), Positives = 92/192 (47%), Gaps = 41/192 (21%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K+VLLGD  VGK+ ++ R++  +F  T   TVG +F      L+        IWDTAG+
Sbjct: 1   LKVVLLGDMNVGKTSLLHRYMERRFKDTVS-TVGGAFY-----LKQWGPYNISIWDTAGR 54

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           E++  L  +Y RGAA  ++ YD+++  S  + +     L    + D + A+VGNK DL E
Sbjct: 55  EQFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTE 114

Query: 154 -------------------KREVPAQDGIEYAEK---------------NGMFFIETSAK 179
                              +R+V  +D   + ++                 M F ETSAK
Sbjct: 115 EGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCF-ETSAK 173

Query: 180 TADNINQLFEEI 191
           T  N+++LFE +
Sbjct: 174 TGYNVDELFEYL 185

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

 Score = 92.5 bits (230), Expect = 2e-23
 Identities = 48/165 (29%), Positives = 86/165 (52%), Gaps = 12/165 (7%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTT----VKFEIWDT 90
           KLV++GD G GK+  V R + G+F+   + T+G       +   D  T    ++F  WDT
Sbjct: 15  KLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVE-----VHPLDFFTNCGKIRFYCWDT 69

Query: 91  AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKAD 150
           AGQE++  L   YY     A++++D+T+  ++     W ++L +    +I + L GNK D
Sbjct: 70  AGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRV-CENIPIVLCGNKVD 128

Query: 151 LHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           +  ++    Q  + +  K  + + E SAK+  N  + F  +A++L
Sbjct: 129 VKNRQVKAKQ--VTFHRKKNLQYYEISAKSNYNFEKPFLYLARKL 171

Length = 219

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

 Score = 90.8 bits (226), Expect = 3e-23
 Identities = 54/169 (31%), Positives = 84/169 (49%), Gaps = 17/169 (10%)

Query: 35  KLVLLGDSGVGKSCIVLRFVR----GQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           K+ +LG SGVGKS + +RF+     G+++P  +      +  Q     D   V  EI DT
Sbjct: 1   KIAVLGASGVGKSALTVRFLTKRFIGEYEPNLESL----YSRQVTI--DGEQVSLEIQDT 54

Query: 91  AGQERYAALAPL--YYRGAAVAVVVYDITSPDSFNKAQ---YWVKELQKHGSPDIVMALV 145
            GQ++      L    R A   V+VY IT   SF+        ++E++K    +I + LV
Sbjct: 55  PGQQQNEDPESLERSLRWADGFVLVYSITDRSSFDVVSQLLQLIREIKKRDG-EIPVILV 113

Query: 146 GNKADLHEKREVPAQDGIEYAEKNGMFFIETSA-KTADNINQLFEEIAK 193
           GNKADL   R+V  ++G + A + G  F E SA +    +  +F E+ +
Sbjct: 114 GNKADLLHSRQVSTEEGQKLALELGCLFFEVSAAENYLEVQNVFHELCR 162

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|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 = 90.3 bits (224), Expect = 5e-23
 Identities = 55/171 (32%), Positives = 87/171 (50%), Gaps = 9/171 (5%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+V+LG  GVGKS + ++F+   F      T+  ++  +T A  D+     +I DTAGQ 
Sbjct: 4   KIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAY--KTQARIDNEPALLDILDTAGQA 61

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKEL--QKHGSPDIVMALVGNKADLH 152
            + A+   Y R     ++ Y +T   SF +A  + KEL  +   + DI + LVGNK DL 
Sbjct: 62  EFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEF-KELITRVRLTEDIPLVLVGNKVDLE 120

Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAK----TADNINQLFEEIAKRLPRPS 199
           ++R+V  ++G   A +    F ETSA       D  + L  EI ++   P+
Sbjct: 121 QQRQVTTEEGRNLAREFNCPFFETSAALRFYIDDAFHGLVREIRRKESMPA 171

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

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

 Score = 90.5 bits (225), Expect = 5e-23
 Identities = 47/170 (27%), Positives = 92/170 (54%), Gaps = 13/170 (7%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K+ LLGD+ +GK+ +++++V G+FD     T+G +F+ +TI+++  T + F IWD  GQ
Sbjct: 1   LKIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRG-TEITFSIWDLGGQ 59

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL-- 151
             +  + PL  + A   + ++D+T   + N  + W ++ +      I + LVG K DL  
Sbjct: 60  REFINMLPLVCKDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIPI-LVGTKYDLFA 118

Query: 152 ----HEKREVPAQDGIEYAE--KNGMFFIETSAKTADNINQLFEEIAKRL 195
                E+ E+  Q   +YA+  K  + F   S   + N+ ++F+ +  ++
Sbjct: 119 DLPPEEQEEITKQ-ARKYAKAMKAPLIF--CSTSHSINVQKIFKFVLAKV 165

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

 Score = 88.7 bits (220), Expect = 2e-22
 Identities = 55/168 (32%), Positives = 88/168 (52%), Gaps = 15/168 (8%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V +GD  VGK+C+++ +    F      TV  +F +  +   D  TV   +WDTAGQ
Sbjct: 2   IKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVVV--DGNTVNLGLWDTAGQ 59

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL YRGA V ++ + + S  S+ N  + W+ EL +H +P + + LVG K DL 
Sbjct: 60  EDYNRLRPLSYRGADVFLLAFSLISKASYENVLKKWIPEL-RHYAPGVPIVLVGTKLDLR 118

Query: 153 EKRE----------VPAQDGIEYAEKNGM-FFIETSAKTADNINQLFE 189
           + ++          +    G E  ++ G   +IE S+KT  N+  +F+
Sbjct: 119 DDKQFFADHPGAVPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVFD 166

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

 Score = 88.0 bits (218), Expect = 4e-22
 Identities = 55/160 (34%), Positives = 84/160 (52%), Gaps = 5/160 (3%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           ++V+ G  GVGKS +VLRFV+G F  +   T+  ++  Q I+    +    +I DT G  
Sbjct: 3   RVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISC-SKSICTLQITDTTGSH 60

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFN--KAQY-WVKELQKHGSPDIVMALVGNKADL 151
           ++ A+  L        ++VY ITS  S    K  Y  + E++ +    I + LVGNK D 
Sbjct: 61  QFPAMQRLSISKGHAFILVYSITSKQSLEELKPIYELICEIKGNNLEKIPIMLVGNKCDE 120

Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
              REV + +G   A      F+ETSAKT  N+ +LF+E+
Sbjct: 121 SPSREVSSSEGAALARTWNCAFMETSAKTNHNVQELFQEL 160

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

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

 Score = 87.5 bits (217), Expect = 6e-22
 Identities = 50/170 (29%), Positives = 85/170 (50%), Gaps = 17/170 (10%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K VL+GD  VGK+ +++ +    +      T   +F      L D   V+ ++ DTAGQ
Sbjct: 1   LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSVVV--LVDGKPVRLQLCDTAGQ 58

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADL- 151
           + +  L PL Y    V ++ + + +P SF N ++ W+ E++KH +P   + LVG +ADL 
Sbjct: 59  DEFDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKH-NPKAPIILVGTQADLR 117

Query: 152 -----------HEKREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
                      + ++ V        AEK G   +IE SA T  N+ ++F+
Sbjct: 118 TDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVFD 167

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

 Score = 86.4 bits (214), Expect = 2e-21
 Identities = 54/169 (31%), Positives = 88/169 (52%), Gaps = 15/169 (8%)

Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           R KLV++GD   GK+ ++  F  G+F      TV  ++++    + D   V+  +WDTAG
Sbjct: 1   RRKLVIVGDGACGKTSLLYVFTLGEFPEEYHPTVFENYVTD-CRV-DGKPVQLALWDTAG 58

Query: 93  QERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADL 151
           QE Y  L PL Y  A V ++ + I +PDS  N    W++E++++  P++ + LVG K DL
Sbjct: 59  QEEYERLRPLSYSKAHVILIGFAIDTPDSLENVRTKWIEEVRRY-CPNVPVILVGLKKDL 117

Query: 152 HEK----------REVPAQDGIEYAEKNGM-FFIETSAKTADNINQLFE 189
            ++            VP Q     A   G   ++E SA T + ++ +FE
Sbjct: 118 RQEAVAKGNYATDEFVPIQQAKLVARAIGAKKYMECSALTGEGVDDVFE 166

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

 Score = 85.1 bits (210), Expect = 1e-20
 Identities = 53/181 (29%), Positives = 87/181 (48%), Gaps = 17/181 (9%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +QT    D  TV   +WDTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQTAV--DGRTVSLNLWDTAGQ 61

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQY-WVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L  L Y    V ++ + I SP S+   ++ W  E+  H  P++ + LVG K DL 
Sbjct: 62  EEYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHH-CPNVPILLVGTKKDLR 120

Query: 153 EKREV-------------PAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPS 199
              +              P Q G    + + + ++E SA   D + ++F E  + +  P+
Sbjct: 121 NDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVLNPT 180

Query: 200 P 200
           P
Sbjct: 181 P 181

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

 Score = 84.8 bits (210), Expect = 2e-20
 Identities = 60/171 (35%), Positives = 89/171 (52%), Gaps = 8/171 (4%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIA--LQDSTTVKFEIWDTAG 92
           ++VLLGDSGVGKS +   F  G ++ ++    G     +T++   +++T V ++ W+   
Sbjct: 2   RVVLLGDSGVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVVYDHWE--- 58

Query: 93  QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKEL-QKHGSPDIVMALVGNKADL 151
           QE    L     +     V+VY +T   SF KA     +L +   + DI + LVGNK+DL
Sbjct: 59  QEDGMWLEDSCMQVGDAYVIVYSVTDRSSFEKASELRIQLRRARQAEDIPIILVGNKSDL 118

Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK--RLPRPSP 200
              REV  Q+G   A      FIETSA    N+++LFE I +  RL R S 
Sbjct: 119 VRSREVSVQEGRACAVVFDCKFIETSAALQHNVDELFEGIVRQVRLRRDSK 169

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|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 = 82.9 bits (205), Expect = 4e-20
 Identities = 50/171 (29%), Positives = 82/171 (47%), Gaps = 17/171 (9%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 2   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 59

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y    V ++ + + SP SF N    W  E++ H  P+  + LVG K DL 
Sbjct: 60  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLR 118

Query: 153 EKRE------------VPAQDGIEYA-EKNGMFFIETSAKTADNINQLFEE 190
           + ++            +    G+  A E   + ++E SA T   +  +F+E
Sbjct: 119 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 169

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

 Score = 82.6 bits (204), Expect = 7e-20
 Identities = 53/176 (30%), Positives = 85/176 (48%), Gaps = 13/176 (7%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+V+LGD   GK+ ++  F RG F    + TV  +++       D   V+  +WDTAGQE
Sbjct: 2   KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYIH--DIFVDGLAVELSLWDTAGQE 59

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
            +  L  L Y    V ++ + + +PDS  N    W+ E++ H  P + + LV  K DL E
Sbjct: 60  EFDRLRSLSYADTHVIMLCFSVDNPDSLENVESKWLAEIRHH-CPGVKLVLVALKCDLRE 118

Query: 154 KREVPA--------QDGIEYAEK-NGMFFIETSAKTADNINQLFEEIAKRLPRPSP 200
            R            ++G+  A++ N   ++E SAK    +N+ F E A+      P
Sbjct: 119 PRNERDRGTHTISYEEGLAVAKRINACRYLECSAKLNRGVNEAFTEAARVALNARP 174

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|219856 pfam08477, Miro, Miro-like protein

 Score = 78.6 bits (194), Expect = 3e-19
 Identities = 38/117 (32%), Positives = 59/117 (50%), Gaps = 5/117 (4%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+V++GD G GKS ++ + V G+F P      G +    T+   D  T    IWD  G+E
Sbjct: 1   KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTL-EVDGDTGLLNIWDFGGRE 59

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQ---YWVKELQKHGSPDIVMALVGNK 148
                  ++ + A   ++VYD+T  +S N+      W+  L+K G   I + LVGNK
Sbjct: 60  ELKFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNLRKLGG-KIPVILVGNK 115

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

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

 Score = 79.5 bits (196), Expect = 1e-18
 Identities = 50/169 (29%), Positives = 86/169 (50%), Gaps = 8/169 (4%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           +LV +G +GVGK+ ++ RF+   F+P  + TV    L           V  +I DT+G  
Sbjct: 1   RLVFMGAAGVGKTALIQRFLYDTFEPKHRRTVEE--LHSKEYEVAGVKVTIDILDTSGSY 58

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHE 153
            + A+  L  +      +VY +  P+SF + +   +E L+      + + +VGNK D   
Sbjct: 59  SFPAMRKLSIQNGDAFALVYSVDDPESFEEVKRLREEILEVKEDKFVPIVVVGNKIDSLA 118

Query: 154 KREVPAQDGIEYAE---KNGMFFIETSAKTADNINQLFEEIAKRLPRPS 199
           +R+V A D +   E    NG  F+E SAK  +N+ ++F+E+ ++   PS
Sbjct: 119 ERQVEAADALSTVELDWNNG--FVEASAKDNENVTEVFKELLQQANLPS 165

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 = 78.9 bits (194), Expect = 2e-18
 Identities = 45/157 (28%), Positives = 85/157 (54%), Gaps = 4/157 (2%)

Query: 39  LGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA 98
           +GD G GK+  V R + G+F+     T+G   +   +   +   ++F +WDTAGQE++  
Sbjct: 1   VGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLVFHTNRGPIRFNVWDTAGQEKFGG 59

Query: 99  LAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP 158
           L   YY     A++++D+T+  ++     W ++L +    +I + L GNK D+ + R+V 
Sbjct: 60  LRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRV-CENIPIVLCGNKVDVKD-RKVK 117

Query: 159 AQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           A+  I +  K  + + + SAK+  N  + F  +A++L
Sbjct: 118 AKS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 153

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

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

 Score = 78.2 bits (193), Expect = 3e-18
 Identities = 50/173 (28%), Positives = 90/173 (52%), Gaps = 20/173 (11%)

Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ-DSTTVKFEIWDTA 91
           R K+VL+GDS  GK+ ++  F +  F      TV   F + T + + D   ++  +WDT+
Sbjct: 1   RCKIVLVGDSQCGKTALLQVFAKDSFPENYVPTV---FENYTASFEVDKQRIELSLWDTS 57

Query: 92  GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKAD 150
           G   Y  + PL Y  +   ++ +DI+ P++ +   + W  E+++   P+  + LVG K+D
Sbjct: 58  GSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEVREFC-PNTPVLLVGCKSD 116

Query: 151 LH----------EKREVPA--QDGIEYAEKNG-MFFIETSAKTADN-INQLFE 189
           L            KR++P   + G   A++ G   ++E SAKT++N +  +FE
Sbjct: 117 LRTDLSTLTELSNKRQIPVSHEQGRNLAKQIGAAAYVECSAKTSENSVRDVFE 169

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

 Score = 71.1 bits (174), Expect = 1e-15
 Identities = 48/171 (28%), Positives = 83/171 (48%), Gaps = 17/171 (9%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 2   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 59

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y    V +V + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 60  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 118

Query: 153 E------------KREVPAQDGIEYA-EKNGMFFIETSAKTADNINQLFEE 190
           +            ++ +  + G + A +   + ++E SA T   +  +F+E
Sbjct: 119 DDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVFDE 169

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

 Score = 69.0 bits (169), Expect = 2e-14
 Identities = 42/172 (24%), Positives = 80/172 (46%), Gaps = 20/172 (11%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFD----PTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           ++V+LG S VGK+ IV RF+ G+F+    PT +      F  +  +++     + +I DT
Sbjct: 2   RMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-----DFHRKLYSIRGE-VYQLDILDT 55

Query: 91  AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKEL---------QKHGSPDIV 141
           +G   + A+  L      V ++V+ + + +SF +     +++         +   +  I 
Sbjct: 56  SGNHPFPAMRRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIP 115

Query: 142 MALVGNKADLHEKREVPAQDGIEY-AEKNGMFFIETSAKTADNINQLFEEIA 192
           M + GNKAD    REV   +  +         + E SAK   N++++F  + 
Sbjct: 116 MVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRALF 167

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|206707 cd04135, Tc10, Rho GTPase TC10 (Tc10)

 Score = 65.4 bits (159), Expect = 2e-13
 Identities = 45/171 (26%), Positives = 87/171 (50%), Gaps = 17/171 (9%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F P   V       + ++ +     +   ++DTAGQ
Sbjct: 1   LKCVVVGDGAVGKTCLLMSYANDAF-PEEYVPTVFDHYAVSVTVGGKQYL-LGLYDTAGQ 58

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y    V ++ + + +P SF N  + WV EL+++ +P++   L+G + DL 
Sbjct: 59  EDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPYLLIGTQIDLR 117

Query: 153 E------------KREVPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEE 190
           +            ++ +  + G + A++ G   ++E SA T   +  +F+E
Sbjct: 118 DDPKTLARLNDMKEKPITVEQGQKLAKEIGACCYVECSALTQKGLKTVFDE 168

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|206735 cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases

 Score = 63.5 bits (154), Expect = 8e-13
 Identities = 47/169 (27%), Positives = 85/169 (50%), Gaps = 19/169 (11%)

Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ-DSTTVKFEIW 88
           +N++ K+V++GDS  GK+ ++  F +  F      TV   F + T + + D+  ++  +W
Sbjct: 2   QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTV---FENYTASFEIDTQRIELSLW 58

Query: 89  DTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGN 147
           DT+G   Y  + PL Y  +   ++ +DI+ P++ +   + W  E+Q+   P+  M LVG 
Sbjct: 59  DTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPNTKMLLVGC 117

Query: 148 KADL------------HEKREVPAQDGIEYAEKNGMF-FIETSAKTADN 183
           K+DL            H +  V    G   A++ G   +IE SA  ++N
Sbjct: 118 KSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSEN 166

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

 Score = 61.4 bits (150), Expect = 3e-12
 Identities = 40/167 (23%), Positives = 77/167 (46%), Gaps = 16/167 (9%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           ++++LG  G GK+ I+ +   G+   T   T+G  F  +T+  ++   VKF +WD  GQ+
Sbjct: 1   RILMLGLDGAGKTTILYKLKLGEVVTTIP-TIG--FNVETVEYKN---VKFTVWDVGGQD 54

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH----GSPDIVMALVGNKAD 150
           +   L   YY      + V D +  +   +A+  + +L       G+P +++A   NK D
Sbjct: 55  KIRPLWKHYYENTDGLIFVVDSSDRERIEEAKNELHKLLNEEELKGAPLLILA---NKQD 111

Query: 151 LHEKR---EVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKR 194
           L       E+    G+E  +         SA T D +++  + + ++
Sbjct: 112 LPGALTESELIELLGLESIKGRRWHIQPCSAVTGDGLDEGLDWLIEQ 158

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

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

 Score = 61.2 bits (149), Expect = 5e-12
 Identities = 47/170 (27%), Positives = 84/170 (49%), Gaps = 29/170 (17%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTS------KVTVGASFLSQTIALQDSTTVKFEI 87
           V++VL+GD GVGKS +++  V  +F P +      ++T+ A    + +     TT    I
Sbjct: 3   VRIVLIGDEGVGKSSLIMSLVSEEF-PENVPRVLPEITIPADVTPERV----PTT----I 53

Query: 88  WDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQ-YWVKELQKHG--SPDIVMAL 144
            DT+ + +  A      R A V  +VY +  P +  + +  W+  +++ G   P I   L
Sbjct: 54  VDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVPII---L 110

Query: 145 VGNKADLHEKR-EVPAQDGI-----EYAEKNGMFFIETSAKTADNINQLF 188
           VGNK+DL +   +   ++ +     E+ E      +E SAKT  N++++F
Sbjct: 111 VGNKSDLRDGSSQAGLEEEMLPIMNEFREIET--CVECSAKTLINVSEVF 158

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|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases

 Score = 60.5 bits (146), Expect = 2e-11
 Identities = 50/192 (26%), Positives = 92/192 (47%), Gaps = 27/192 (14%)

Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ-DSTTVKFEIWDT 90
           +R KLVL+GD   GK+ ++    +  +  T   TV   F + T  L+ +   V+  +WDT
Sbjct: 12  VRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTV---FENYTACLETEEQRVELSLWDT 68

Query: 91  AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKA 149
           +G   Y  + PL Y  +   ++ +DI+ P+ F+ A + W  E+  +  P   + L+G K 
Sbjct: 69  SGSPYYDNVRPLCYSDSDAVLLCFDISRPEIFDSALKKWRAEILDY-CPSTRILLIGCKT 127

Query: 150 DL-----------HEKRE-VPAQDGIEYAEKNGM-FFIETSAKTAD-NINQLFEEIA--- 192
           DL           ++K+  +  + G   A++ G   ++E SA T++ +I+ +F   +   
Sbjct: 128 DLRTDLSTLMELSNQKQAPISYEQGCAMAKQLGAEAYLECSAFTSEKSIHSIFRTASLLC 187

Query: 193 ----KRLPRPSP 200
                 L + SP
Sbjct: 188 INKLSPLAKKSP 199

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

 Score = 59.1 bits (143), Expect = 4e-11
 Identities = 48/176 (27%), Positives = 77/176 (43%), Gaps = 21/176 (11%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           V++ +LG  GVGK+ IV +F+  +F P   +      L +   +         I D    
Sbjct: 1   VRVAVLGAPGVGKTAIVRQFLAQEF-PEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNM 59

Query: 94  ERYAALAPLYY--------RGAAVAVVVYDITSPDSFNKAQYWVKELQKH-------GSP 138
           +RY   A   +        R +   ++VYDI SPDSF+    +VK L++        G+ 
Sbjct: 60  QRYPGTAGQEWMDPRFRGLRNSRAFILVYDICSPDSFH----YVKLLRQQILETRPAGNK 115

Query: 139 DIVMALVGNKADLHEKREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFEEIAK 193
           +  + +VGNK D    R  P         K+    ++E SAK   +I  LF+E+  
Sbjct: 116 EPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILLLFKELLI 171

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

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

 Score = 57.3 bits (138), Expect = 2e-10
 Identities = 48/194 (24%), Positives = 80/194 (41%), Gaps = 45/194 (23%)

Query: 34  VKLVLLGDSGVGKS-CIVLRFVRG-----QFDPTSKVTVGA--------SFLSQTIALQD 79
           +K V++GD+ VGK+  I  R         Q   T   TV A          L ++  + D
Sbjct: 3   IKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVD 62

Query: 80  STTVKFEIWDTAG----QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQ-YWVKELQK 134
             +V   +WDT G      R+A      Y  + V ++ + I SP+S    +  W  E+ +
Sbjct: 63  GVSVSLRLWDTFGDHDKDRRFA------YGRSDVVLLCFSIASPNSLRNVKTMWYPEI-R 115

Query: 135 HGSPDIVMALVGNKADL-HEKRE------------------VPAQDGIEYAEKNGMFFIE 175
           H  P + + LVG K DL +   +                  +P + G   A++ G+ + E
Sbjct: 116 HFCPRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKELGIPYYE 175

Query: 176 TSAKTADNINQLFE 189
           TS  T   +  +F+
Sbjct: 176 TSVVTQFGVKDVFD 189

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|206736 cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases

 Score = 53.1 bits (127), Expect = 9e-09
 Identities = 42/166 (25%), Positives = 81/166 (48%), Gaps = 19/166 (11%)

Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ-DSTTVKFEIWDTA 91
           R K+V++GD+  GK+ ++  F +  +  +   TV   F + T + + D   ++  +WDT+
Sbjct: 1   RCKIVVVGDTQCGKTALLHVFAKDNYPESYVPTV---FENYTASFEIDKHRIELNMWDTS 57

Query: 92  GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNK-- 148
           G   Y  + PL Y  +   ++ +DI+ P++ +   + W  E Q+   P+  + LVG K  
Sbjct: 58  GSSYYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEF-CPNAKLVLVGCKLD 116

Query: 149 --ADLHEKREVPAQDGIEYAEKNG---------MFFIETSAKTADN 183
              DL   RE+  Q  I    + G         + ++E S++ ++N
Sbjct: 117 MRTDLSTLRELSKQRLIPVTHEQGSLLARQLGAVAYVECSSRMSEN 162

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

 Score = 51.0 bits (122), Expect = 8e-08
 Identities = 42/149 (28%), Positives = 67/149 (44%), Gaps = 30/149 (20%)

Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQ--FDPTSKV--TVGASFLSQTIALQDSTTVK---- 84
           +V+++++GDSGVGKS +V   V+G     P   +  TVG   ++       S ++K    
Sbjct: 21  QVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSE 80

Query: 85  ----FEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGS--- 137
                E+WD +G ERY     L+Y      + V+D++   +    Q W  E+   G+   
Sbjct: 81  RDFFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSA 140

Query: 138 ------------PDIVMALVGNKADLHEK 154
                       P IV   +GNKAD+  K
Sbjct: 141 PLGSGGPGGLPVPYIV---IGNKADIAPK 166

Length = 334

>gnl|CDD|234395 TIGR03918, GTP_HydF, [FeFe] hydrogenase H-cluster maturation GTPase HydF

 Score = 49.8 bits (120), Expect = 2e-07
 Identities = 26/88 (29%), Positives = 42/88 (47%), Gaps = 8/88 (9%)

Query: 109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK 168
           +A++V D             ++EL++   P IV   V NK DL E     + +  +  +K
Sbjct: 88  LALLVVDAGVGPG-EYELELIEELKERKIPYIV---VINKIDLGE----ESAELEKLEKK 139

Query: 169 NGMFFIETSAKTADNINQLFEEIAKRLP 196
            G+  I  SA T + I++L E I + LP
Sbjct: 140 FGLPPIFVSALTGEGIDELKEAIIELLP 167

This model describes the family of the [Fe] hydrogenase maturation protein HypF as characterized in Chlamydomonas reinhardtii and found, in an operon with radical SAM proteins HydE and HydG, in numerous bacteria. It has GTPase activity, can bind an 4Fe-4S cluster, and is essential for hydrogenase activity [Protein fate, Protein modification and repair]. Length = 391

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

 Score = 47.6 bits (113), Expect = 5e-07
 Identities = 37/159 (23%), Positives = 72/159 (45%), Gaps = 19/159 (11%)

Query: 31  NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           N  ++++++G    GK+ I+ +   G+   T+  T+G  F  +T+  ++   + F +WD 
Sbjct: 11  NKEMRILMVGLDAAGKTTILYKLKLGES-VTTIPTIG--FNVETVTYKN---ISFTVWDV 64

Query: 91  AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKA 149
            GQ++   L   YY      + V D    D  ++A +   + L +    D V+ +  NK 
Sbjct: 65  GGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQ 124

Query: 150 DLHEKREVPAQDGIEYAEKNGM-------FFIETSAKTA 181
           DL +     A    E  EK G+       ++I+ +  T+
Sbjct: 125 DLPD-----AMKAAEITEKLGLHSIRDRNWYIQPTCATS 158

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

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

 Score = 47.2 bits (113), Expect = 6e-07
 Identities = 35/132 (26%), Positives = 60/132 (45%), Gaps = 25/132 (18%)

Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
            N  +++++LG    GK+ I+ +   G+   T+  T+G  F  +T+  ++   VKF +WD
Sbjct: 11  WNKEMRILILGLDNAGKTTILYKLKLGEIV-TTIPTIG--FNVETVTYKN---VKFTVWD 64

Query: 90  TAGQERYAALAPL---YYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-------HGSPD 139
             GQE    L PL   Y+      + V D    D   +A+   +EL           +P 
Sbjct: 65  VGGQES---LRPLWRNYFPNTDAVIFVVDSADRDRIEEAK---EELHALLNEEELADAPL 118

Query: 140 IVMALVGNKADL 151
           ++   + NK DL
Sbjct: 119 LI---LANKQDL 127

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

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

 Score = 45.3 bits (107), Expect = 4e-06
 Identities = 31/112 (27%), Positives = 47/112 (41%), Gaps = 8/112 (7%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDST----TVKFEIWD 89
           VK+++LGDSGVGKS +V    + Q       TVG S   +     + T    T   E+WD
Sbjct: 1   VKVLVLGDSGVGKSSLVHLLCKNQVLGNPSWTVGCSVDVRHHTYGEGTPEEKTFYVELWD 60

Query: 90  TAGQ----ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGS 137
             G     E   +   ++Y      + V+D+T+  S      W  E     +
Sbjct: 61  VGGSVGSAESVKSTRAVFYNQINGIIFVHDLTNKKSSQNLYRWSLEALNRDT 112

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

>gnl|CDD|206679 cd01892, Miro2, Mitochondrial Rho family 2 (Miro2), C-terminal

 Score = 44.9 bits (107), Expect = 4e-06
 Identities = 25/89 (28%), Positives = 43/89 (48%), Gaps = 11/89 (12%)

Query: 109 VAVVVYDITSPDSFNKAQYWVKELQKHG-SPDIVMALVGNKADLHEKREVPAQDGIEYAE 167
           VA +VYD + P+SF    Y  +  +K+    +I    V  KADL E+++       E+  
Sbjct: 80  VACLVYDSSDPNSF---SYCAEVYKKYFMLGEIPCLFVAAKADLDEQQQRAEVQPDEFCR 136

Query: 168 KNGMFFIET----SAKTADNINQLFEEIA 192
           K     +      S++  D+ N+LF ++A
Sbjct: 137 K---LGLPPPLHFSSRLGDSSNELFTKLA 162

Miro2 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 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. Length = 180

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

 Score = 44.4 bits (105), Expect = 6e-06
 Identities = 35/128 (27%), Positives = 62/128 (48%), Gaps = 17/128 (13%)

Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
            N  +++++LG    GK+ I+ +   GQ   T+  TVG  F  +T+  ++   VKF +WD
Sbjct: 6   GNKEMRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVG--FNVETVTYKN---VKFNVWD 59

Query: 90  TAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWV------KELQKHGSPDIVMA 143
             GQ++   L   YY G    + V D    D  ++A+  +      +E++     D ++ 
Sbjct: 60  VGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMR-----DALLL 114

Query: 144 LVGNKADL 151
           +  NK DL
Sbjct: 115 VFANKQDL 122

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

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

 Score = 43.8 bits (104), Expect = 9e-06
 Identities = 44/169 (26%), Positives = 69/169 (40%), Gaps = 21/169 (12%)

Query: 36  LVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER 95
           + L+G    GK+ +V     GQF   +  TVG +    T   + + T+K  +WD  GQ R
Sbjct: 2   ITLVGLQNSGKTTLVNVIASGQFSEDTIPTVGFNMRKVT---KGNVTIK--VWDLGGQPR 56

Query: 96  YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-------HGSPDIVMALVGNK 148
           + ++   Y RG    V V D    +    A+    EL          G P +V   +GNK
Sbjct: 57  FRSMWERYCRGVNAIVYVVDAADREKLEVAK---NELHDLLEKPSLEGIPLLV---LGNK 110

Query: 149 ADLHEK---REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKR 194
            DL       E+  Q  ++      +     SAK   NI+ + + + K 
Sbjct: 111 NDLPGALSVDELIEQMNLKSITDREVSCYSISAKEKTNIDIVLDWLIKH 159

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

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

 Score = 42.3 bits (100), Expect = 3e-05
 Identities = 26/100 (26%), Positives = 47/100 (47%), Gaps = 9/100 (9%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G    GK+ I+ +F+ G+   TS  T+G S + +         ++F +WD  GQE
Sbjct: 17  KVIIVGLDNAGKTTILYQFLLGEVVHTSP-TIG-SNVEEI----VYKNIRFLMWDIGGQE 70

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK 134
              +    YY      ++V D T  +     +   +EL K
Sbjct: 71  SLRSSWNTYYTNTDAVILVIDSTDRERLPLTK---EELYK 107

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

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

 Score = 41.6 bits (97), Expect = 6e-05
 Identities = 33/119 (27%), Positives = 56/119 (47%), Gaps = 9/119 (7%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQF-DPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           ++V LG  G GK+ I+ +  + +F  P    T+G  F  +T+  ++   +KF IWD  G+
Sbjct: 1   RVVTLGLDGAGKTTILFKLKQDEFMQPIP--TIG--FNVETVEYKN---LKFTIWDVGGK 53

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQY-WVKELQKHGSPDIVMALVGNKADL 151
            +   L   YY      V V D +  D  ++A     K L +    D ++ +  NK D+
Sbjct: 54  HKLRPLWKHYYLNTQAVVFVIDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDV 112

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

>gnl|CDD|223561 COG0486, ThdF, Predicted GTPase [General function prediction only]

 Score = 42.2 bits (100), Expect = 7e-05
 Identities = 33/126 (26%), Positives = 44/126 (34%), Gaps = 26/126 (20%)

Query: 83  VKFEIWDTAGQ------------ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVK 130
           +   + DTAG             ER           A + + V D + P    K    + 
Sbjct: 265 IPVRLVDTAGIRETDDVVERIGIERAKKAI----EEADLVLFVLDASQPLD--KEDLALI 318

Query: 131 ELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE 190
           EL     P IV   V NKADL     V   +       NG   I  SAKT + ++ L E 
Sbjct: 319 ELLPKKKPIIV---VLNKADL-----VSKIELESEKLANGDAIISISAKTGEGLDALREA 370

Query: 191 IAKRLP 196
           I +   
Sbjct: 371 IKQLFG 376

Length = 454

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

 Score = 41.2 bits (97), Expect = 7e-05
 Identities = 32/124 (25%), Positives = 55/124 (44%), Gaps = 18/124 (14%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           +++LLG    GKS ++ +    +   T   TVG  F  + + L+   ++   +WD  GQE
Sbjct: 1   QVLLLGLDSAGKSTLLYKLKHAELVTTIP-TVG--FNVEMLQLEKHLSLT--VWDVGGQE 55

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-------HGSPDIVMALVGN 147
           +   +   Y       V V D +     +++Q   KEL+         G P +++A   N
Sbjct: 56  KMRTVWKCYLENTDGLVYVVDSSDEARLDESQ---KELKHILKNEHIKGVPVVLLA---N 109

Query: 148 KADL 151
           K DL
Sbjct: 110 KQDL 113

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

>gnl|CDD|206727 cd04164, trmE, trmE is a tRNA modification GTPase

 Score = 40.6 bits (96), Expect = 1e-04
 Identities = 30/126 (23%), Positives = 45/126 (35%), Gaps = 31/126 (24%)

Query: 83  VKFEIWDTAG------------QER-YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWV 129
           +   + DTAG             ER   A+       A + ++V D +        +   
Sbjct: 51  IPVRLIDTAGLRETEDEIEKIGIERAREAIE-----EADLVLLVVDASEG---LDEEDLE 102

Query: 130 KELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE 189
                   P IV   V NK+DL         D    +E NG   I  SAKT + I++L E
Sbjct: 103 ILELPAKKPVIV---VLNKSDL-------LSDAEGISELNGKPIIAISAKTGEGIDELKE 152

Query: 190 EIAKRL 195
            + +  
Sbjct: 153 ALLELA 158

TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. 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. Length = 159

>gnl|CDD|234624 PRK00089, era, GTPase Era; Reviewed

 Score = 40.8 bits (97), Expect = 2e-04
 Identities = 27/72 (37%), Positives = 39/72 (54%), Gaps = 10/72 (13%)

Query: 129 VKELQKHGSPDIVMALVGNKADL-HEKREVPAQDGIEYAEKNGMFFIET---SAKTADNI 184
           +++L+K  +P I   LV NK DL  +K E+      E +E   M F E    SA   DN+
Sbjct: 106 LEKLKKVKTPVI---LVLNKIDLVKDKEELLPLLE-ELSEL--MDFAEIVPISALKGDNV 159

Query: 185 NQLFEEIAKRLP 196
           ++L + IAK LP
Sbjct: 160 DELLDVIAKYLP 171

Length = 292

>gnl|CDD|218203 pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserved region

 Score = 40.3 bits (95), Expect = 2e-04
 Identities = 30/131 (22%), Positives = 53/131 (40%), Gaps = 22/131 (16%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDST-----TVKFEIWD 89
           K++L+G  G GKS +  R +   F   S        L  TI ++ S       +   +WD
Sbjct: 1   KVLLMGLRGSGKSSM--RSI--IFSNYSPRDT--LRLGATIDVEQSHVRFLGNLTLNLWD 54

Query: 90  TAGQERYAALAPLY-----YRGAAVAVVVYDITS---PDSFNKAQYWVKELQKHGSPDI- 140
             GQ+ +            +    V + V+D+ S    +        ++ L ++ SP+  
Sbjct: 55  CPGQDDFMENYLTRQKEHIFSNVGVLIYVFDVESREYEEDLATLVKIIEALYQY-SPNAK 113

Query: 141 VMALVGNKADL 151
           V  L+ +K DL
Sbjct: 114 VFVLI-HKMDL 123

GTR1 was first identified in S. cerevisiae as a suppressor of a mutation in RCC1. 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. Included in this family is the human Rag C, a novel protein that has been shown to interact with RagA/B. Length = 230

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

 Score = 39.8 bits (93), Expect = 3e-04
 Identities = 41/174 (23%), Positives = 79/174 (45%), Gaps = 26/174 (14%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           V+++++G    GK+ I+ +   G+   T+  T+G  F  +T+  ++   +KF +WD  GQ
Sbjct: 18  VRILMVGLDAAGKTTILYKLKLGEV-VTTIPTIG--FNVETVEYKN---LKFTMWDVGGQ 71

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPD----IVMALVGNKA 149
           ++   L   YY+     + V D    +    A+   +EL++  S D     V+ +  NK 
Sbjct: 72  DKLRPLWRHYYQNTNGLIFVVDSNDRERIGDAR---EELERMLSEDELRDAVLLVFANKQ 128

Query: 150 DLHEKREVPAQDGIEYAEKNGM-------FFIE-TSAKTADNINQLFEEIAKRL 195
           DL       A    E  EK G+       ++I+   A TA  + +  + ++  +
Sbjct: 129 DLPN-----AMSTTEVTEKLGLHSVRQRNWYIQGCCATTAQGLYEGLDWLSANI 177

Length = 182

>gnl|CDD|225138 COG2229, COG2229, Predicted GTPase [General function prediction only]

 Score = 39.4 bits (92), Expect = 4e-04
 Identities = 44/174 (25%), Positives = 69/174 (39%), Gaps = 26/174 (14%)

Query: 25  GSSDAKNLR-VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTV 83
            +S A  +   K+V++G  G GK+     FVR        V   A   S +   +  TTV
Sbjct: 1   LTSAANKMIETKIVVIGPVGAGKT----TFVR-ALSDKPLVITEADASSVSGKGKRPTTV 55

Query: 84  -----------KFEIW--DTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVK 130
                         +    T GQER+  +  +  RGA  A+V+ D + P +F  A+  + 
Sbjct: 56  AMDFGSIELDEDTGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITF-HAEEIID 114

Query: 131 ELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEY--AEKNGMFFIETSAKTAD 182
            L       +V+A+  NK DL +    P +   E    E   +  IE  A   +
Sbjct: 115 FLTSRNPIPVVVAI--NKQDLFDAL--PPEKIREALKLELLSVPVIEIDATEGE 164

Length = 187

>gnl|CDD|206726 cd04163, Era, E

 Score = 39.0 bits (92), Expect = 5e-04
 Identities = 20/69 (28%), Positives = 34/69 (49%), Gaps = 6/69 (8%)

Query: 129 VKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMF--FIETSAKTADNINQ 186
           ++ L+K  +P I   LV NK DL + +E      +E  ++   F      SA   +N+++
Sbjct: 104 LELLKKSKTPVI---LVLNKIDLVKDKED-LLPLLEKLKELHPFAEIFPISALKGENVDE 159

Query: 187 LFEEIAKRL 195
           L E I + L
Sbjct: 160 LLEYIVEYL 168

coli Ras-like protein (Era) is a multifunctional GTPase. 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. Length = 168

>gnl|CDD|206719 cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7) GTPases

 Score = 39.0 bits (91), Expect = 5e-04
 Identities = 36/123 (29%), Positives = 53/123 (43%), Gaps = 14/123 (11%)

Query: 36  LVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER 95
           +V+LG    GK+ ++ R    +F  T   T G +     ++L ++  V F  WD  GQE+
Sbjct: 6   IVMLGLDSAGKTTVLYRLKFNEFVNTVP-TKGFNTEKIKVSLGNAKGVTFHFWDVGGQEK 64

Query: 96  YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-------HGSPDIVMALVGNK 148
              L   Y R     V V D    +   +A+    EL K        G P +V+A   NK
Sbjct: 65  LRPLWKSYTRCTDGIVFVVDSVDVERMEEAK---TELHKITKFSENQGVPVLVLA---NK 118

Query: 149 ADL 151
            DL
Sbjct: 119 QDL 121

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily. Length = 183

>gnl|CDD|225171 COG2262, HflX, GTPases [General function prediction only]

 Score = 39.6 bits (93), Expect = 6e-04
 Identities = 22/85 (25%), Positives = 39/85 (45%), Gaps = 5/85 (5%)

Query: 113 VYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMF 172
           V D + P+   K +     L + G+ +I + LV NK DL     +  ++ +   E+    
Sbjct: 278 VVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDL-----LEDEEILAELERGSPN 332

Query: 173 FIETSAKTADNINQLFEEIAKRLPR 197
            +  SAKT + ++ L E I + L  
Sbjct: 333 PVFISAKTGEGLDLLRERIIELLSG 357

Length = 411

>gnl|CDD|224081 COG1159, Era, GTPase [General function prediction only]

 Score = 39.1 bits (92), Expect = 7e-04
 Identities = 24/91 (26%), Positives = 43/91 (47%), Gaps = 7/91 (7%)

Query: 109 VAVVVYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAE 167
           V ++++ + + + +     ++ E L+K  +P I   LV NK D   K +      I + +
Sbjct: 86  VDLILFVVDADEGWGPGDEFILEQLKKTKTPVI---LVVNKIDK-VKPKTVLLKLIAFLK 141

Query: 168 KNGMF--FIETSAKTADNINQLFEEIAKRLP 196
           K   F   +  SA   DN++ L E I + LP
Sbjct: 142 KLLPFKEIVPISALKGDNVDTLLEIIKEYLP 172

Length = 298

>gnl|CDD|235392 PRK05291, trmE, tRNA modification GTPase TrmE; Reviewed

 Score = 39.3 bits (93), Expect = 8e-04
 Identities = 33/126 (26%), Positives = 50/126 (39%), Gaps = 32/126 (25%)

Query: 83  VKFEIWDTAG------------QER-YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWV 129
           +   + DTAG             ER   A+       A + ++V D + P +    +   
Sbjct: 263 IPLRLIDTAGIRETDDEVEKIGIERSREAIE-----EADLVLLVLDASEPLTEEDDEIL- 316

Query: 130 KELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE 189
              +    P IV   V NKADL  +        I+  E+NG   I  SAKT + I++L E
Sbjct: 317 --EELKDKPVIV---VLNKADLTGE--------IDLEEENGKPVIRISAKTGEGIDELRE 363

Query: 190 EIAKRL 195
            I +  
Sbjct: 364 AIKELA 369

Length = 449

>gnl|CDD|224082 COG1160, COG1160, Predicted GTPases [General function prediction only]

 Score = 37.6 bits (88), Expect = 0.003
 Identities = 32/134 (23%), Positives = 57/134 (42%), Gaps = 36/134 (26%)

Query: 84  KFEIWDTAG----------QERYAALAPL-YYRGAAVAVVVYDITSPDSFNKAQYWVKEL 132
           K+ + DTAG           E+Y+    L     A V ++V D T   S    +  ++  
Sbjct: 227 KYVLIDTAGIRRKGKITESVEKYSVARTLKAIERADVVLLVIDATEGIS----EQDLRIA 282

Query: 133 ---QKHGSPDIVMALVGNKADLHE---------KREVPAQDG-IEYAEKNGMFFIETSAK 179
              ++ G   ++   V NK DL E         K+++  +   +++A    + FI  SA 
Sbjct: 283 GLIEEAGRGIVI---VVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAP---IVFI--SAL 334

Query: 180 TADNINQLFEEIAK 193
           T   +++LFE I +
Sbjct: 335 TGQGLDKLFEAIKE 348

Length = 444

>gnl|CDD|206646 cd00880, Era_like, E

 Score = 36.5 bits (85), Expect = 0.003
 Identities = 35/169 (20%), Positives = 58/169 (34%), Gaps = 18/169 (10%)

Query: 37  VLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG---- 92
            + G   VGKS ++   +       S +  G +        +        + DT G    
Sbjct: 1   AIFGRPNVGKSSLLNALLGQNVGIVSPIP-GTTRDPVRKEWELLPLGPVVLIDTPGLDEE 59

Query: 93  ---QERYAALAPLYYRGAAVAVVVYD--ITSPDSFNKAQYWVKELQKHGSPDIVMALVGN 147
                     A      A + ++V D  +T  +   K       L++ G P +   LV N
Sbjct: 60  GGLGRERVEEARQVADRADLVLLVVDSDLTPVEEEAKLG----LLRERGKPVL---LVLN 112

Query: 148 KADLHEKREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKRL 195
           K DL  + E          E       I  SA   + I++L ++IA+ L
Sbjct: 113 KIDLVPESEEEELLRERKLELLPDLPVIAVSALPGEGIDELRKKIAELL 161

coli Ras-like protein (Era)-like GTPase. The Era (E. coli Ras-like protein)-like family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngB), 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 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. Length = 161

>gnl|CDD|206666 cd01878, HflX, HflX GTPase family

 Score = 36.7 bits (86), Expect = 0.004
 Identities = 26/84 (30%), Positives = 41/84 (48%), Gaps = 6/84 (7%)

Query: 112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM 171
           VV D + PD   + +   + L++ G+ DI + LV NK DL +       +    A +   
Sbjct: 127 VV-DASDPDREEQIETVEEVLKELGADDIPIILVLNKIDLLDD---EELEERLRAGRPDA 182

Query: 172 FFIETSAKTADNINQLFEEIAKRL 195
            FI  SAKT + ++ L E I + L
Sbjct: 183 VFI--SAKTGEGLDLLKEAIEELL 204

HflX subfamily. 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. Length = 204

>gnl|CDD|133303 cd04103, Centaurin_gamma, Centaurin gamma (CENTG) GTPase

 Score = 35.9 bits (83), Expect = 0.004
 Identities = 36/168 (21%), Positives = 67/168 (39%), Gaps = 16/168 (9%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +KL ++G+   GKS +V R++ G +        G  F  +   L D  +    I D  G 
Sbjct: 1   LKLGIVGNLRSGKSALVHRYLTGSYVQLES-PEGGRFKKEV--LVDGQSHLLLIRDEGGA 57

Query: 94  ERYAALAPLYYRGAAVAVV-VYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADL 151
                     + G   AV+ V+ +    SF        +L  +    +I + LVG +  +
Sbjct: 58  ------PDAQFAGWVDAVIFVFSLEDEASFQTVYRLYHQLSSYRNISEIPLILVGTQDAI 111

Query: 152 HEK--REVPAQDGIEYAE--KNGMFFIETSAKTADNINQLFEEIAKRL 195
                R +      +     K   ++ ET A    N+ ++F+E A+++
Sbjct: 112 SASNPRVIDDARARQLCADMKRCSYY-ETCATYGLNVERVFQEAAQKI 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	202
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	100.0
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	100.0
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	100.0
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	100.0
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	100.0
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	100.0
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	100.0
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	100.0
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	100.0
KOG0394	210	consensus Ras-related GTPase [General function pre	100.0
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	100.0
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	100.0
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	100.0
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	100.0
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	100.0
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	100.0
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	100.0
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	100.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	100.0
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	100.0
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	100.0
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	100.0
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	100.0
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	100.0
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	100.0
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	100.0
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	100.0
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	100.0
PLN03110	216	Rab GTPase; Provisional	100.0
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	100.0
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	100.0
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	100.0
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	100.0
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	100.0
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	100.0
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	100.0
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	100.0
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	100.0
PTZ00369	189	Ras-like protein; Provisional	100.0
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	100.0
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	100.0
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	100.0
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	100.0
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	100.0
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	100.0
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	100.0
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	100.0
PLN03108	210	Rab family protein; Provisional	100.0
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	100.0
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	100.0
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	100.0
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	100.0
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	100.0
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	100.0
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	100.0
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	100.0
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	100.0
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	100.0
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	100.0
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	100.0
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	100.0
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	99.98
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.98
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.98
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	99.98
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.98
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.98
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.98
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.98
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.98
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.97
PLN03118	211	Rab family protein; Provisional	99.97
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.97
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.97
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.97
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.97
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.97
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.97
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.97
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.97
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	99.97
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.97
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.97
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.97
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.97
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.97
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.97
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.97
PLN00223	181	ADP-ribosylation factor; Provisional	99.97
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.96
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.96
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.96
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.96
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.96
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.96
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.96
KOG0395	196	consensus Ras-related GTPase [General function pre	99.96
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.96
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.96
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.96
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.96
PTZ00133	182	ADP-ribosylation factor; Provisional	99.96
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.96
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.95
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.95
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.95
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.95
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.95
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.95
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.95
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.95
PLN00023	334	GTP-binding protein; Provisional	99.95
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.95
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.95
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.94
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.94
PTZ00099	176	rab6; Provisional	99.94
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.94
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.94
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.94
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.94
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.93
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.93
PRK12299	335	obgE GTPase CgtA; Reviewed	99.93
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.93
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.93
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.92
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.92
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.92
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.92
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.91
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.91
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.91
COG1100	219	GTPase SAR1 and related small G proteins [General	99.91
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.91
PRK04213	201	GTP-binding protein; Provisional	99.91
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.91
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.91
PRK15494	339	era GTPase Era; Provisional	99.91
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.9
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.9
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.9
cd00881	189	GTP_translation_factor GTP translation factor fami	99.9
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.9
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.89
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.89
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.89
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.89
PRK03003	472	GTP-binding protein Der; Reviewed	99.89
PRK03003	472	GTP-binding protein Der; Reviewed	99.89
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.89
PRK12297	424	obgE GTPase CgtA; Reviewed	99.88
PRK11058	426	GTPase HflX; Provisional	99.88
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.88
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.88
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.88
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.88
COG1159	298	Era GTPase [General function prediction only]	99.88
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.88
PRK00089	292	era GTPase Era; Reviewed	99.88
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.87
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.87
KOG1673	205	consensus Ras GTPases [General function prediction	99.87
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.87
PRK12298	390	obgE GTPase CgtA; Reviewed	99.87
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.87
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.87
PRK12296	500	obgE GTPase CgtA; Reviewed	99.87
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.86
PRK05433	600	GTP-binding protein LepA; Provisional	99.86
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.86
PRK05306	787	infB translation initiation factor IF-2; Validated	99.86
CHL00189	742	infB translation initiation factor 2; Provisional	99.85
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.85
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.85
PRK00093	435	GTP-binding protein Der; Reviewed	99.84
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.84
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.84
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.84
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.84
COG1160	444	Predicted GTPases [General function prediction onl	99.83
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.83
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.83
PRK00093	435	GTP-binding protein Der; Reviewed	99.83
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.82
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.82
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.82
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.82
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.82
COG2229	187	Predicted GTPase [General function prediction only	99.81
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.81
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.81
PRK10218	607	GTP-binding protein; Provisional	99.81
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.81
PRK12317	425	elongation factor 1-alpha; Reviewed	99.81
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.81
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.81
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.8
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.8
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.8
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.8
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.8
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.79
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.79
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.79
COG1160	444	Predicted GTPases [General function prediction onl	99.79
COG0486	454	ThdF Predicted GTPase [General function prediction	99.78
PRK12736	394	elongation factor Tu; Reviewed	99.78
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.78
COG0218	200	Predicted GTPase [General function prediction only	99.78
PRK04004	586	translation initiation factor IF-2; Validated	99.77
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.77
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.77
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.77
PRK12735	396	elongation factor Tu; Reviewed	99.77
COG2262	411	HflX GTPases [General function prediction only]	99.76
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.76
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.76
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.75
CHL00071	409	tufA elongation factor Tu	99.75
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.75
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.74
PLN03126	478	Elongation factor Tu; Provisional	99.74
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.74
COG1084	346	Predicted GTPase [General function prediction only	99.74
PRK00049	396	elongation factor Tu; Reviewed	99.74
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.73
KOG1145	683	consensus Mitochondrial translation initiation fac	99.73
PLN00043	447	elongation factor 1-alpha; Provisional	99.72
COG3596	296	Predicted GTPase [General function prediction only	99.72
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.71
PLN03127	447	Elongation factor Tu; Provisional	99.71
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.71
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.7
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.7
PTZ00141	446	elongation factor 1- alpha; Provisional	99.7
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.7
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.69
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.69
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.69
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.69
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.69
COG1163	365	DRG Predicted GTPase [General function prediction	99.68
PRK13351	687	elongation factor G; Reviewed	99.68
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.68
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.68
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	99.67
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.67
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.66
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.65
PRK12739	691	elongation factor G; Reviewed	99.65
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.64
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.63
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.62
PRK09866	741	hypothetical protein; Provisional	99.62
COG0536	369	Obg Predicted GTPase [General function prediction	99.61
PRK00007	693	elongation factor G; Reviewed	99.61
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.6
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.6
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.6
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.59
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.58
PRK12740	668	elongation factor G; Reviewed	99.55
PRK09602	396	translation-associated GTPase; Reviewed	99.54
KOG0090	238	consensus Signal recognition particle receptor, be	99.53
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.53
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.53
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.51
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.5
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.49
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.48
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.47
PRK14845	1049	translation initiation factor IF-2; Provisional	99.47
KOG0082	354	consensus G-protein alpha subunit (small G protein	99.46
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.46
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.44
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.44
PRK13768	253	GTPase; Provisional	99.43
PRK07560	731	elongation factor EF-2; Reviewed	99.42
PTZ00258	390	GTP-binding protein; Provisional	99.42
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.41
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	99.41
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.41
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.4
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.39
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.39
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.39
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.38
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.38
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.37
PTZ00416	836	elongation factor 2; Provisional	99.37
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.36
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	99.36
KOG0461	522	consensus Selenocysteine-specific elongation facto	99.36
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	99.3
PRK09601	364	GTP-binding protein YchF; Reviewed	99.28
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.27
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	99.27
KOG3886	295	consensus GTP-binding protein [Signal transduction	99.25
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.24
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.24
KOG0410	410	consensus Predicted GTP binding protein [General f	99.23
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	99.21
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.21
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.2
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	99.2
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.2
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.2
KOG0466	466	consensus Translation initiation factor 2, gamma s	99.18
COG0050	394	TufB GTPases - translation elongation factors [Tra	99.18
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.14
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	99.11
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	99.05
PRK12289	352	GTPase RsgA; Reviewed	99.05
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	99.04
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.02
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.01
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	99.0
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	98.99
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.97
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.95
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.94
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	98.93
PRK12288	347	GTPase RsgA; Reviewed	98.92
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	98.9
PRK00098	298	GTPase RsgA; Reviewed	98.9
COG5258	527	GTPBP1 GTPase [General function prediction only]	98.89
COG0012	372	Predicted GTPase, probable translation factor [Tra	98.89
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	98.84
KOG0460	449	consensus Mitochondrial translation elongation fac	98.83
KOG3887	347	consensus Predicted small GTPase involved in nucle	98.82
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.81
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	98.8
KOG2486	320	consensus Predicted GTPase [General function predi	98.77
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.76
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	98.76
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.75
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	98.75
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.72
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.72
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.69
KOG1143	591	consensus Predicted translation elongation factor	98.68
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.64
KOG0467	887	consensus Translation elongation factor 2/ribosome	98.6
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.59
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.58
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.56
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.55
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.54
KOG0464	753	consensus Elongation factor G [Translation, riboso	98.53
KOG0099	379	consensus G protein subunit Galphas, small G prote	98.53
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.53
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.52
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.5
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.5
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.48
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.47
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.47
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.46
COG1161	322	Predicted GTPases [General function prediction onl	98.43
cd03112	158	CobW_like The function of this protein family is u	98.42
PRK12288	347	GTPase RsgA; Reviewed	98.41
PRK01889	356	GTPase RsgA; Reviewed	98.4
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.4
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	98.38
PRK10416	318	signal recognition particle-docking protein FtsY;	98.37
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.34
PRK13796	365	GTPase YqeH; Provisional	98.33
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.32
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	98.32
PRK12289	352	GTPase RsgA; Reviewed	98.3
COG1162	301	Predicted GTPases [General function prediction onl	98.3
PRK14974	336	cell division protein FtsY; Provisional	98.3
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.23
PRK13695	174	putative NTPase; Provisional	98.22
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	98.22
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	98.18
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.16
PRK13796	365	GTPase YqeH; Provisional	98.15
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	98.13
KOG4273	418	consensus Uncharacterized conserved protein [Funct	98.11
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.1
COG1162	301	Predicted GTPases [General function prediction onl	98.09
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.08
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.07
KOG0465	721	consensus Mitochondrial elongation factor [Transla	98.07
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	98.05
PRK00098	298	GTPase RsgA; Reviewed	98.04
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.02
COG0523	323	Putative GTPases (G3E family) [General function pr	97.98
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	97.98
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.96
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.96
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.91
COG3523	1188	IcmF Type VI protein secretion system component Va	97.84
cd03114	148	ArgK-like The function of this protein family is u	97.84
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.83
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	97.82
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	97.81
PRK11537	318	putative GTP-binding protein YjiA; Provisional	97.76
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.74
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.72
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.71
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.71
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	97.69
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.66
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.66
KOG2484	435	consensus GTPase [General function prediction only	97.65
PRK10867	433	signal recognition particle protein; Provisional	97.64
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	97.61
TIGR00959	428	ffh signal recognition particle protein. This mode	97.61
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	97.57
cd03111	106	CpaE_like This protein family consists of proteins	97.56
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.56
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.55
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.52
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.52
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	97.46
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.46
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	97.46
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.44
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.44
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.43
PRK08118	167	topology modulation protein; Reviewed	97.41
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.41
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.4
PRK07261	171	topology modulation protein; Provisional	97.39
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.38
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	97.36
KOG0780	483	consensus Signal recognition particle, subunit Srp	97.35
KOG1534	273	consensus Putative transcription factor FET5 [Tran	97.31
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.31
cd02036	179	MinD Bacterial cell division requires the formatio	97.27
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	97.27
KOG0066	807	consensus eIF2-interacting protein ABC50 (ABC supe	97.25
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.24
KOG2423	572	consensus Nucleolar GTPase [General function predi	97.24
PRK04195	482	replication factor C large subunit; Provisional	97.22
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	97.2
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.2
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.19
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	97.17
PLN02200	234	adenylate kinase family protein	97.17
PRK13833	323	conjugal transfer protein TrbB; Provisional	97.15
cd03110	179	Fer4_NifH_child This protein family's function is	97.15
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.15
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.14
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.12
PRK01889	356	GTPase RsgA; Reviewed	97.11
PF00004	132	AAA: ATPase family associated with various cellula	97.1
smart00382	148	AAA ATPases associated with a variety of cellular	97.07
PRK14738	206	gmk guanylate kinase; Provisional	97.06
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.04
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.04
PRK06217	183	hypothetical protein; Validated	97.03
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	97.02
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.02
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	97.01
PRK14530	215	adenylate kinase; Provisional	97.0
PRK13851	344	type IV secretion system protein VirB11; Provision	96.99
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	96.99
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.99
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.99
KOG3929	363	consensus Uncharacterized conserved protein [Funct	96.98
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.97
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.97
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	96.96
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.95
PRK03839	180	putative kinase; Provisional	96.95
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.94
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.94
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.93
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.93
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.93
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	96.92
PRK05416	288	glmZ(sRNA)-inactivating NTPase; Provisional	96.92
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.91
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.91
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	96.91
PRK05480	209	uridine/cytidine kinase; Provisional	96.91
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.91
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	96.89
cd03246	173	ABCC_Protease_Secretion This family represents the	96.89
PRK14737	186	gmk guanylate kinase; Provisional	96.88
PRK14532	188	adenylate kinase; Provisional	96.88
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.88
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	96.87
PRK13949	169	shikimate kinase; Provisional	96.85
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.85
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	96.84
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	96.84
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	96.82

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

Probab=100.00  E-value=7.3e-38  Score=216.46  Aligned_cols=170  Identities=59%  Similarity=1.006  Sum_probs=161.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...+||++||..++|||||+.||..+.+.....++++..+..+.+...+.. +.+.||||.|+++|.++.+-|+++++++
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~-ikfeIWDTAGQERy~slapMYyRgA~AA   81 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNT-IKFEIWDTAGQERYHSLAPMYYRGANAA   81 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcE-EEEEEEEcCCcccccccccceecCCcEE
Confidence            468999999999999999999999999999889999999999999887764 9999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |+|||+++.+||..++.|+..+++...+++-+.+|+||+|+.+.+.+..+++..++...+..++++||+++.|+.++|..
T Consensus        82 ivvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSAKTg~Nv~~if~~  161 (200)
T KOG0092|consen   82 IVVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLERREVEFEEAQAYAESQGLLFFETSAKTGENVNEIFQA  161 (200)
T ss_pred             EEEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEecccccCHHHHHHH
Confidence            99999999999999999999999997788888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCCCCC
Q 028884          191 IAKRLPRPSPS  201 (202)
Q Consensus       191 l~~~i~~~~~~  201 (202)
                      |.+.+.+....
T Consensus       162 Ia~~lp~~~~~  172 (200)
T KOG0092|consen  162 IAEKLPCSDPQ  172 (200)
T ss_pred             HHHhccCcccc
Confidence            99999887543

>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=4.4e-38  Score=218.35  Aligned_cols=172  Identities=41%  Similarity=0.739  Sum_probs=163.2

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGA  107 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~  107 (202)
                      ...++.+||+|+|+.|+|||+|+.||.++.+...+..+++.++..+.+.+.+.. +.+++|||.|+++|+.....|++++
T Consensus         4 ~~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~-iKlQIWDTAGQERFrtit~syYR~a   82 (205)
T KOG0084|consen    4 PEYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKT-IKLQIWDTAGQERFRTITSSYYRGA   82 (205)
T ss_pred             cccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceE-EEEEeeeccccHHHhhhhHhhccCC
Confidence            345789999999999999999999999999999999999999999999887655 8999999999999999999999999


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCe-EEEeccCCCCCHHH
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMF-FIETSAKTADNINQ  186 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~s~~~~~~i~~  186 (202)
                      +++|+|||+++.+||..+..|+.++.++....+|.++|+||+|+.+.+.++.++++.++..++.+ ++++||+++.|+.+
T Consensus        83 hGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe~  162 (205)
T KOG0084|consen   83 HGIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDSTNVED  162 (205)
T ss_pred             CeEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCccCHHH
Confidence            99999999999999999999999999998889999999999999999999999999999999999 99999999999999


Q ss_pred             HHHHHHHHcCCCCC
Q 028884          187 LFEEIAKRLPRPSP  200 (202)
Q Consensus       187 ~~~~l~~~i~~~~~  200 (202)
                      +|..|...+++++.
T Consensus       163 ~F~~la~~lk~~~~  176 (205)
T KOG0084|consen  163 AFLTLAKELKQRKG  176 (205)
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999998887653

>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=8.3e-37  Score=214.89  Aligned_cols=171  Identities=43%  Similarity=0.748  Sum_probs=163.0

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGA  107 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~  107 (202)
                      ++.++.++|+++|+++||||+|+.+|..+.+...+..+++.++..+.+..++.. +.+++|||.|+++|+.+...|+++|
T Consensus         7 ~~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~-i~lQiWDtaGQerf~ti~~sYyrgA   85 (207)
T KOG0078|consen    7 EDYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKK-IKLQIWDTAGQERFRTITTAYYRGA   85 (207)
T ss_pred             CCcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeE-EEEEEEEcccchhHHHHHHHHHhhc
Confidence            366789999999999999999999999999999999999999999999887644 9999999999999999999999999


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQL  187 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~  187 (202)
                      +++++|||+++..||+.+..|+..+..+...++|.++|+||+|+...+.+..+..++++.+++++++++||++|.||.++
T Consensus        86 ~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~NI~ea  165 (207)
T KOG0078|consen   86 MGILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNFNIEEA  165 (207)
T ss_pred             CeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCCCHHHH
Confidence            99999999999999999999999999998889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCC
Q 028884          188 FEEIAKRLPRPS  199 (202)
Q Consensus       188 ~~~l~~~i~~~~  199 (202)
                      |-.|++.++.+.
T Consensus       166 F~~La~~i~~k~  177 (207)
T KOG0078|consen  166 FLSLARDILQKL  177 (207)
T ss_pred             HHHHHHHHHhhc
Confidence            999999988654

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

Probab=100.00  E-value=1.6e-36  Score=209.91  Aligned_cols=167  Identities=45%  Similarity=0.786  Sum_probs=157.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      -+..|+++||..++||||||++|..+.+...+..+++.++..+++.+.+.. +++++|||.|+++|+++.+.|++++.++
T Consensus        20 ~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~-vrLQlWDTAGQERFrslipsY~Rds~va   98 (221)
T KOG0094|consen   20 LKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRT-VRLQLWDTAGQERFRSLIPSYIRDSSVA   98 (221)
T ss_pred             ceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcE-EEEEEEecccHHHHhhhhhhhccCCeEE
Confidence            345999999999999999999999999999999999999999999887665 9999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCC-CCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSP-DIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      |+|||+++..||+...+|++.+++.... ++-+++|+||.||.+.+++..++....+++++..|+++||+.|+|+..+|.
T Consensus        99 viVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g~NVk~lFr  178 (221)
T KOG0094|consen   99 VIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAGENVKQLFR  178 (221)
T ss_pred             EEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCCCCHHHHHH
Confidence            9999999999999999999999887555 477889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCC
Q 028884          190 EIAKRLPRP  198 (202)
Q Consensus       190 ~l~~~i~~~  198 (202)
                      .|...+...
T Consensus       179 rIaa~l~~~  187 (221)
T KOG0094|consen  179 RIAAALPGM  187 (221)
T ss_pred             HHHHhccCc
Confidence            999888765

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=7.5e-36  Score=215.20  Aligned_cols=168  Identities=36%  Similarity=0.595  Sum_probs=149.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      +..+||+|+|..|+|||||+++|..+.+...+.++.+.+.....+.+. +..+.+++||++|++.|..++..+++.+|++
T Consensus         4 ~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~-~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~i   82 (189)
T cd04121           4 DYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLD-GRRVKLQLWDTSGQGRFCTIFRSYSRGAQGI   82 (189)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEEC-CEEEEEEEEeCCCcHHHHHHHHHHhcCCCEE
Confidence            467999999999999999999999988877766676666655555554 4558999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |+|||++++.+|+.+..|+..+.... ++.|++||+||.|+...+.+..++++.+++..+++++++||++|.|++++|++
T Consensus        83 llVfD~t~~~Sf~~~~~w~~~i~~~~-~~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~F~~  161 (189)
T cd04121          83 ILVYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTE  161 (189)
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHH
Confidence            99999999999999999999997763 68999999999999877788889999999999999999999999999999999


Q ss_pred             HHHHcCCCCC
Q 028884          191 IAKRLPRPSP  200 (202)
Q Consensus       191 l~~~i~~~~~  200 (202)
                      |+..+..++.
T Consensus       162 l~~~i~~~~~  171 (189)
T cd04121         162 LARIVLMRHG  171 (189)
T ss_pred             HHHHHHHhcC
Confidence            9988775543

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

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=7.8e-36  Score=217.01  Aligned_cols=164  Identities=35%  Similarity=0.674  Sum_probs=147.0

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      ++|+++|..|+|||||+++|..+.+...+.++.+.++..+.+.+.+ ..+.+++||++|+++|+.++..+++++|++|+|
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~-~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlV   79 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRG-KKIRLQIWDTAGQERFNSITSAYYRSAKGIILV   79 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECC-EEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEE
Confidence            4799999999999999999999999888888888777777776654 459999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc-CCeEEEeccCCCCCHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN-GMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      ||++++.+|+.+..|+..+......+.|+++|+||+|+.+.+++...+..+++++. ++.++++||++|.|+.++|++|+
T Consensus        80 fDvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F~~l~  159 (202)
T cd04120          80 YDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLV  159 (202)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHH
Confidence            99999999999999999888776678999999999999877788888888888875 78899999999999999999999


Q ss_pred             HHcCCC
Q 028884          193 KRLPRP  198 (202)
Q Consensus       193 ~~i~~~  198 (202)
                      +.+.+.
T Consensus       160 ~~~~~~  165 (202)
T cd04120         160 DDILKK  165 (202)
T ss_pred             HHHHHh
Confidence            887543

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

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

Probab=100.00  E-value=4.7e-36  Score=206.09  Aligned_cols=167  Identities=41%  Similarity=0.814  Sum_probs=158.7

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ..+.+|++++|+.|+|||+|+.+|....+.+.++.+.+.++..+.+.+.+.. +.+++|||.|++.+++....|++.+.+
T Consensus         3 ~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~-IKlqiwDtaGqe~frsv~~syYr~a~G   81 (216)
T KOG0098|consen    3 YAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQ-IKLQIWDTAGQESFRSVTRSYYRGAAG   81 (216)
T ss_pred             ccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCce-EEEEEEecCCcHHHHHHHHHHhccCcc
Confidence            3568999999999999999999999999999999999999999999887655 999999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|+|||+++.++|..+..|+..++++..++..+++++||+|+...+++..++..+|++++++.++++||+++.|+.++|.
T Consensus        82 alLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VEEaF~  161 (216)
T KOG0098|consen   82 ALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSAKTAENVEEAFI  161 (216)
T ss_pred             eEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhhhhhhhHHHHHH
Confidence            99999999999999999999999999888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCC
Q 028884          190 EIAKRLPR  197 (202)
Q Consensus       190 ~l~~~i~~  197 (202)
                      .....|++
T Consensus       162 nta~~Iy~  169 (216)
T KOG0098|consen  162 NTAKEIYR  169 (216)
T ss_pred             HHHHHHHH
Confidence            98887764

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

Probab=100.00  E-value=1.2e-35  Score=199.31  Aligned_cols=170  Identities=42%  Similarity=0.758  Sum_probs=158.5

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGA  107 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~  107 (202)
                      +.....+||+++|..|+|||||+.+|..+.+++....+++.++..+.+.+.+.. +.+.+|||.|+++|+.+.+.|++++
T Consensus         6 s~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~-~KlaiWDTAGqErFRtLTpSyyRga   84 (209)
T KOG0080|consen    6 SGYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKR-LKLAIWDTAGQERFRTLTPSYYRGA   84 (209)
T ss_pred             cCcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCce-EEEEEEeccchHhhhccCHhHhccC
Confidence            344567999999999999999999999999999999899999999999887655 9999999999999999999999999


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQ  186 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~  186 (202)
                      .++|+|||.+.+++|..+..|++.+..+ .++++-.++|+||+|...++.+..++...+++++.+.++++||++.+|++.
T Consensus        85 qGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~h~~LFiE~SAkt~~~V~~  164 (209)
T KOG0080|consen   85 QGIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARKHRCLFIECSAKTRENVQC  164 (209)
T ss_pred             ceeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHHhhCcEEEEcchhhhccHHH
Confidence            9999999999999999999999999877 567888899999999887899999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCC
Q 028884          187 LFEEIAKRLPRP  198 (202)
Q Consensus       187 ~~~~l~~~i~~~  198 (202)
                      +|+.|+++|.+.
T Consensus       165 ~FeelveKIi~t  176 (209)
T KOG0080|consen  165 CFEELVEKIIET  176 (209)
T ss_pred             HHHHHHHHHhcC
Confidence            999999998764

>cd04122 Rab14 Rab14 subfamily

Probab=100.00  E-value=2.3e-34  Score=204.15  Aligned_cols=164  Identities=40%  Similarity=0.756  Sum_probs=145.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .+||+++|++|+|||||+++|..+.+...+.++.+.+.....+... +..+.+.+||+||++.+...+..+++.+|++|+
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~il   80 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVN-GQKIKLQIWDTAGQERFRAVTRSYYRGAAGALM   80 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEEC-CEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEE
Confidence            4799999999999999999999998877777676666655555554 445899999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      |||++++.+|+.+..|+..+.....++.|+++|+||+|+.+...+..+++..+++..+++++++||++|.|+.++|..++
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l~  160 (166)
T cd04122          81 VYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETA  160 (166)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHH
Confidence            99999999999999999988877667899999999999988777788889999999999999999999999999999999


Q ss_pred             HHcCC
Q 028884          193 KRLPR  197 (202)
Q Consensus       193 ~~i~~  197 (202)
                      +.+.+
T Consensus       161 ~~~~~  165 (166)
T cd04122         161 KKIYQ  165 (166)
T ss_pred             HHHhh
Confidence            88754

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

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=4.1e-34  Score=204.04  Aligned_cols=162  Identities=36%  Similarity=0.674  Sum_probs=142.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|.+++|||||+.+|..+.+...+.++.+..+ ...+.. ++..+.+.+|||+|+++|+.++..+++++|++|+|
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~-~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv   79 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSV-DGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLA   79 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEE-CCEEEEEEEEECCCCccccccchhhcCCCcEEEEE
Confidence            6899999999999999999999999887888876555 344454 45569999999999999999999999999999999


Q ss_pred             EeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCCCCC----------CCChHHHHHHHHHcCC-eEEEeccCCC
Q 028884          114 YDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHEKR----------EVPAQDGIEYAEKNGM-FFIETSAKTA  181 (202)
Q Consensus       114 ~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~----------~~~~~~~~~~~~~~~~-~~~~~s~~~~  181 (202)
                      ||++++.||+.+ ..|+..+.... ++.|++||+||+|+.+..          .+..+++..+++..++ .+++|||++|
T Consensus        80 yd~~~~~Sf~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~  158 (176)
T cd04133          80 FSLISRASYENVLKKWVPELRHYA-PNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQ  158 (176)
T ss_pred             EEcCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCcc
Confidence            999999999998 78999987764 579999999999986542          4778889999999987 5999999999


Q ss_pred             CCHHHHHHHHHHHcCCC
Q 028884          182 DNINQLFEEIAKRLPRP  198 (202)
Q Consensus       182 ~~i~~~~~~l~~~i~~~  198 (202)
                      .|++++|+.+++.+.++
T Consensus       159 ~nV~~~F~~~~~~~~~~  175 (176)
T cd04133         159 QNVKAVFDAAIKVVLQP  175 (176)
T ss_pred             cCHHHHHHHHHHHHhcC
Confidence            99999999999987655

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example,

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=100.00  E-value=7.9e-34  Score=201.63  Aligned_cols=165  Identities=44%  Similarity=0.786  Sum_probs=146.3

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      ..+||+++|++|+|||||+++|.++.+...+.++.+.+.....+...+ ..+.+.+||++|++.+..++..+++.+|++|
T Consensus         2 ~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~-~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i   80 (167)
T cd01867           2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDG-KKIKLQIWDTAGQERFRTITTAYYRGAMGII   80 (167)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECC-EEEEEEEEeCCchHHHHHHHHHHhCCCCEEE
Confidence            568999999999999999999999998888787777766555555544 4489999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      +|||++++.+|..+..|+..+......+.|+++|+||.|+.+......++...++...+++++++||+++.|++++|+++
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i  160 (167)
T cd01867          81 LVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEAFFTL  160 (167)
T ss_pred             EEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999987766789999999999998766677778888888899999999999999999999999


Q ss_pred             HHHcCC
Q 028884          192 AKRLPR  197 (202)
Q Consensus       192 ~~~i~~  197 (202)
                      ++++..
T Consensus       161 ~~~~~~  166 (167)
T cd01867         161 AKDIKK  166 (167)
T ss_pred             HHHHHh
Confidence            998754

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

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=9.3e-34  Score=203.35  Aligned_cols=163  Identities=28%  Similarity=0.554  Sum_probs=142.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      +..+||+++|..|+|||||+++|..+.+...+.++....+. ..+.+ ++..+.+.+|||+|++.|..++..+++.+|++
T Consensus         3 ~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~~-~~~~~-~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~   80 (182)
T cd04172           3 NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEI-DTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV   80 (182)
T ss_pred             cceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeeeE-EEEEE-CCEEEEEEEEECCCchhhHhhhhhhcCCCCEE
Confidence            45789999999999999999999999988877777765553 44444 44558999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCCC------------CCCCChHHHHHHHHHcCC-eEEEe
Q 028884          111 VVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHE------------KREVPAQDGIEYAEKNGM-FFIET  176 (202)
Q Consensus       111 i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~  176 (202)
                      |+|||++++.||+.+ ..|+..+.... ++.|++||+||+|+.+            ...+..+++.++++..++ +|++|
T Consensus        81 ilvyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~  159 (182)
T cd04172          81 LICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIEC  159 (182)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEEC
Confidence            999999999999997 89999998764 6799999999999854            245888999999999996 89999


Q ss_pred             ccCCCCC-HHHHHHHHHHHcC
Q 028884          177 SAKTADN-INQLFEEIAKRLP  196 (202)
Q Consensus       177 s~~~~~~-i~~~~~~l~~~i~  196 (202)
                      ||++|.| ++++|+.++..+.
T Consensus       160 SAk~~~n~v~~~F~~~~~~~~  180 (182)
T cd04172         160 SALQSENSVRDIFHVATLACV  180 (182)
T ss_pred             CcCCCCCCHHHHHHHHHHHHh
Confidence            9999998 9999999988643

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

>cd04127 Rab27A Rab27a subfamily

Probab=100.00  E-value=1.2e-33  Score=202.98  Aligned_cols=166  Identities=32%  Similarity=0.622  Sum_probs=146.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecC---------CcEEEEEEEeCCChhhhhhcccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQD---------STTVKFEIWDTAGQERYAALAPL  102 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~i~D~~G~~~~~~~~~~  102 (202)
                      +.+||+++|++|||||||+++|..+.+...+.++.+.+.....+.+..         +..+.+.+||++|++.+..++..
T Consensus         3 ~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~   82 (180)
T cd04127           3 YLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTTA   82 (180)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHHH
Confidence            579999999999999999999999998888888877766655555432         34588999999999999999999


Q ss_pred             cccCccEEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCC
Q 028884          103 YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTA  181 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~  181 (202)
                      +++.+|++|+|||++++.++..+..|+..+... ..++.|+++|+||+|+.+...+..++...++...+++++++||++|
T Consensus        83 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~  162 (180)
T cd04127          83 FFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAATG  162 (180)
T ss_pred             HhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCCC
Confidence            999999999999999999999999999988765 3457899999999999877777788889999999999999999999


Q ss_pred             CCHHHHHHHHHHHcCC
Q 028884          182 DNINQLFEEIAKRLPR  197 (202)
Q Consensus       182 ~~i~~~~~~l~~~i~~  197 (202)
                      .|++++|++|++.+.+
T Consensus       163 ~~v~~l~~~l~~~~~~  178 (180)
T cd04127         163 TNVEKAVERLLDLVMK  178 (180)
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            9999999999987654

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

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

Probab=100.00  E-value=3e-34  Score=196.80  Aligned_cols=169  Identities=37%  Similarity=0.700  Sum_probs=153.6

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      +...+||+++|++|+|||||+++|...++...+..+++.++..+.+.+. +..+.+++|||.|+++|+++...+++++|.
T Consensus         6 K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd-~~~vtlQiWDTAGQERFqsLg~aFYRgaDc   84 (210)
T KOG0394|consen    6 KRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVD-DRSVTLQIWDTAGQERFQSLGVAFYRGADC   84 (210)
T ss_pred             cccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEc-CeEEEEEEEecccHHHhhhcccceecCCce
Confidence            3557999999999999999999999999999999999999999999887 555999999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCC----CCCeEEEEEeCCCCCCC--CCCChHHHHHHHHHc-CCeEEEeccCCCC
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGS----PDIVMALVGNKADLHEK--REVPAQDGIEYAEKN-GMFFIETSAKTAD  182 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~p~ivv~nK~D~~~~--~~~~~~~~~~~~~~~-~~~~~~~s~~~~~  182 (202)
                      .+++||.+++.||+.+..|.+.+..+..    ...|+||++||+|+...  +.++...++.||+.. .++|+++|||+..
T Consensus        85 Cvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~  164 (210)
T KOG0394|consen   85 CVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEAT  164 (210)
T ss_pred             EEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEecccccc
Confidence            9999999999999999999999877644    35789999999998653  788999999999986 6889999999999


Q ss_pred             CHHHHHHHHHHHcCCCC
Q 028884          183 NINQLFEEIAKRLPRPS  199 (202)
Q Consensus       183 ~i~~~~~~l~~~i~~~~  199 (202)
                      |+.++|..+...++...
T Consensus       165 NV~~AFe~ia~~aL~~E  181 (210)
T KOG0394|consen  165 NVDEAFEEIARRALANE  181 (210)
T ss_pred             cHHHHHHHHHHHHHhcc
Confidence            99999999998876653

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=100.00  E-value=8.8e-34  Score=202.21  Aligned_cols=164  Identities=30%  Similarity=0.516  Sum_probs=142.7

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .++|+|+|.+|+|||||+++|..+.+...+.++.+..+ ...+.. ++..+.+.+||++|.+.+..++..+++.+|++|+
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~il   79 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARI-DNEPALLDILDTAGQAEFTAMRDQYMRCGEGFII   79 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEE-CCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEE
Confidence            47999999999999999999999998777777766444 333444 4455889999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      |||++++.+|..+..|+..+... ..+++|+++|+||+|+.+...+..++...+++..+++++++||++|.|++++|++|
T Consensus        80 v~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~~f~~l  159 (172)
T cd04141          80 CYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETSAALRHYIDDAFHGL  159 (172)
T ss_pred             EEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEecCCCCCHHHHHHHH
Confidence            99999999999999898888765 34689999999999997777788888999999999999999999999999999999


Q ss_pred             HHHcCCC
Q 028884          192 AKRLPRP  198 (202)
Q Consensus       192 ~~~i~~~  198 (202)
                      +..+.+.
T Consensus       160 ~~~~~~~  166 (172)
T cd04141         160 VREIRRK  166 (172)
T ss_pred             HHHHHHh
Confidence            9887643

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=100.00  E-value=1.4e-33  Score=206.04  Aligned_cols=165  Identities=33%  Similarity=0.631  Sum_probs=145.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|.+|+|||||+++|.++.+...+.++.+.++....+.+.++..+.+.+||++|++.+..++..+++++|++|+|
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv   80 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIV   80 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEE
Confidence            58999999999999999999999888878888777776666666645668999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHc----CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcC-CeEEEeccCCCCCHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKH----GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNG-MFFIETSAKTADNINQLF  188 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~----~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~s~~~~~~i~~~~  188 (202)
                      ||++++.+|+.+..|+..+...    ...++|++||+||+|+.+......++...+++..+ ..++++||++|.|+.++|
T Consensus        81 ~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f  160 (201)
T cd04107          81 FDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGINIEEAM  160 (201)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHHH
Confidence            9999999999999999887653    13678999999999997666777888999999988 689999999999999999


Q ss_pred             HHHHHHcCCC
Q 028884          189 EEIAKRLPRP  198 (202)
Q Consensus       189 ~~l~~~i~~~  198 (202)
                      ++|++.+.+.
T Consensus       161 ~~l~~~l~~~  170 (201)
T cd04107         161 RFLVKNILAN  170 (201)
T ss_pred             HHHHHHHHHh
Confidence            9999987654

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.

>cd04117 Rab15 Rab15 subfamily

Probab=100.00  E-value=2.6e-33  Score=197.82  Aligned_cols=161  Identities=39%  Similarity=0.698  Sum_probs=143.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      ++|+++|++|+|||||+++|..+.+.+.+.++.+.+.....+...+ ..+.+.+||++|.+.+..++..+++.+|++++|
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v   79 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDG-IKVRIQIWDTAGQERYQTITKQYYRRAQGIFLV   79 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECC-EEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEE
Confidence            4899999999999999999999998877777777766666666543 458899999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      ||++++.+|+.+..|+..+......+.|+++|+||.|+.+...+..++...+++..+++++++||++|.|++++|++|++
T Consensus        80 ~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~  159 (161)
T cd04117          80 YDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSNIKESFTRLTE  159 (161)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHh
Confidence            99999999999999999988775567999999999999877777888899999989999999999999999999999987


Q ss_pred             Hc
Q 028884          194 RL  195 (202)
Q Consensus       194 ~i  195 (202)
                      .+
T Consensus       160 ~~  161 (161)
T cd04117         160 LV  161 (161)
T ss_pred             hC
Confidence            53

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

>cd01865 Rab3 Rab3 subfamily

Probab=100.00  E-value=2.8e-33  Score=198.46  Aligned_cols=162  Identities=37%  Similarity=0.658  Sum_probs=142.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|.+|+|||||+++|.++.+...+.++.+.++....+.. ++..+.+.+||++|++.+..++..+++.+|++++|
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v   80 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFR-NDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM   80 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEE
Confidence            79999999999999999999999887777777666555555544 34558999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      ||.+++.+++.+..|+..+......+.|+++|+||+|+.+......++..+++...+++++++||+++.|+.++|++|+.
T Consensus        81 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~  160 (165)
T cd01865          81 YDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENINVKQVFERLVD  160 (165)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            99999999999999999998776668999999999999877767777888888888899999999999999999999998


Q ss_pred             HcC
Q 028884          194 RLP  196 (202)
Q Consensus       194 ~i~  196 (202)
                      .+.
T Consensus       161 ~~~  163 (165)
T cd01865         161 IIC  163 (165)
T ss_pred             HHH
Confidence            764

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=100.00  E-value=2.3e-33  Score=199.01  Aligned_cols=164  Identities=43%  Similarity=0.781  Sum_probs=145.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .+||+|+|++|+|||||+++|.++.+...+.++.+.++....+... +..+.+.+||+||++.+..++..+++.+|++|+
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~   80 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELD-GKTIKLQIWDTAGQERFRTITSSYYRGAHGIII   80 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEEC-CEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEE
Confidence            4799999999999999999999988877777777766666666554 444889999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      |||+++++++..+..|+..+.....++.|+++|+||.|+.+...+..++...++...+++++++|+++|.|++++|++|+
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~  160 (166)
T cd01869          81 VYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVEQAFMTMA  160 (166)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHHHHHHH
Confidence            99999999999999999999877657899999999999877777777888899999999999999999999999999999


Q ss_pred             HHcCC
Q 028884          193 KRLPR  197 (202)
Q Consensus       193 ~~i~~  197 (202)
                      +.+.+
T Consensus       161 ~~~~~  165 (166)
T cd01869         161 REIKK  165 (166)
T ss_pred             HHHHh
Confidence            98753

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=3e-33  Score=206.78  Aligned_cols=165  Identities=25%  Similarity=0.489  Sum_probs=143.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...+||+++|+.|||||||+++|..+.+...+.++....+. ..+.. ++..+.+.+|||+|++.|..++..+++++|++
T Consensus        11 ~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~-~~i~~-~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~v   88 (232)
T cd04174          11 VMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-AGLET-EEQRVELSLWDTSGSPYYDNVRPLCYSDSDAV   88 (232)
T ss_pred             eeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeE-EEEEE-CCEEEEEEEEeCCCchhhHHHHHHHcCCCcEE
Confidence            35789999999999999999999999988888888766653 34444 44559999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHH-HHHHHHHHHHcCCCCCeEEEEEeCCCCCC------------CCCCChHHHHHHHHHcCC-eEEEe
Q 028884          111 VVVYDITSPDSFNK-AQYWVKELQKHGSPDIVMALVGNKADLHE------------KREVPAQDGIEYAEKNGM-FFIET  176 (202)
Q Consensus       111 i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~  176 (202)
                      |+|||++++.+|.. +..|+..+.... ++.|+++|+||+|+.+            ...+..+++.++++..++ .|++|
T Consensus        89 IlVyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~Et  167 (232)
T cd04174          89 LLCFDISRPETVDSALKKWKAEIMDYC-PSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLEC  167 (232)
T ss_pred             EEEEECCChHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEEc
Confidence            99999999999998 489999998764 5789999999999854            256788899999999998 69999


Q ss_pred             ccCCCC-CHHHHHHHHHHHcCCC
Q 028884          177 SAKTAD-NINQLFEEIAKRLPRP  198 (202)
Q Consensus       177 s~~~~~-~i~~~~~~l~~~i~~~  198 (202)
                      ||++|. |++++|..++..+.++
T Consensus       168 SAktg~~~V~e~F~~~~~~~~~~  190 (232)
T cd04174         168 SAFTSEKSIHSIFRSASLLCLNK  190 (232)
T ss_pred             cCCcCCcCHHHHHHHHHHHHHHh
Confidence            999997 8999999998877554

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.

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=3.5e-33  Score=199.90  Aligned_cols=160  Identities=25%  Similarity=0.524  Sum_probs=139.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|++|+|||||+++|..+.+...+.++....+. ..+.+. +..+.+.+|||+|++.|..+...+++.+|++|+|
T Consensus         2 ~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~-~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilv   79 (178)
T cd04131           2 CKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENYT-ASFEID-EQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLIC   79 (178)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEEE-EEEEEC-CEEEEEEEEECCCchhhhhcchhhcCCCCEEEEE
Confidence            68999999999999999999999988777777765553 445554 4558999999999999999999999999999999


Q ss_pred             EeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCCC------------CCCCChHHHHHHHHHcCC-eEEEeccC
Q 028884          114 YDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHE------------KREVPAQDGIEYAEKNGM-FFIETSAK  179 (202)
Q Consensus       114 ~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~s~~  179 (202)
                      ||++++.||+.+ ..|+..++... ++.|+++|+||+|+.+            ...+..+++.++++..++ +++++||+
T Consensus        80 fdit~~~Sf~~~~~~w~~~i~~~~-~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~  158 (178)
T cd04131          80 FDISRPETLDSVLKKWRGEIQEFC-PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAF  158 (178)
T ss_pred             EECCChhhHHHHHHHHHHHHHHHC-CCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccC
Confidence            999999999996 89999998774 6899999999999854            235788899999999997 79999999


Q ss_pred             CCCC-HHHHHHHHHHHcC
Q 028884          180 TADN-INQLFEEIAKRLP  196 (202)
Q Consensus       180 ~~~~-i~~~~~~l~~~i~  196 (202)
                      +|.| ++++|..++....
T Consensus       159 ~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         159 TSEKSVRDIFHVATMACL  176 (178)
T ss_pred             cCCcCHHHHHHHHHHHHh
Confidence            9995 9999999998644

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.

>cd04109 Rab28 Rab28 subfamily

Probab=100.00  E-value=5.5e-33  Score=204.84  Aligned_cols=165  Identities=34%  Similarity=0.563  Sum_probs=147.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|.+|+|||||+++|.++.+...+.++.+.++....+.+.++..+.+.+||++|++.+..++..+++.+|++|+|
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV   80 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLV   80 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEE
Confidence            58999999999999999999999888888888888877777777666668999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcC---CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHG---SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~---~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      ||++++++|+.+..|+..+....   ..+.|+++|+||+|+.+.+.+..++...+++..+++++++||++|.|++++|++
T Consensus        81 ~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~gv~~lf~~  160 (215)
T cd04109          81 YDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDRVNLLFQQ  160 (215)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHH
Confidence            99999999999999999987653   235689999999999877777888888999999999999999999999999999


Q ss_pred             HHHHcCCC
Q 028884          191 IAKRLPRP  198 (202)
Q Consensus       191 l~~~i~~~  198 (202)
                      |+..+...
T Consensus       161 l~~~l~~~  168 (215)
T cd04109         161 LAAELLGV  168 (215)
T ss_pred             HHHHHHhc
Confidence            99988654

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=100.00  E-value=6.2e-33  Score=196.80  Aligned_cols=162  Identities=30%  Similarity=0.642  Sum_probs=143.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|.+|+|||||+++|.++.+...+.++.+.++....+...+ ..+.+.+||++|++.+..++..+++.+|++|+|
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv   79 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRN-KEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLV   79 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECC-eEEEEEEEECCccHHHHHHHHHHhccCCEEEEE
Confidence            5899999999999999999999998887788877777666666654 458999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCC-----CCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGS-----PDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~-----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      ||.+++.++..+..|+..+.....     .+.|+++|+||+|+.++.....++...++...+++++++||+++.|+.++|
T Consensus        80 ~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  159 (168)
T cd04119          80 YDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMF  159 (168)
T ss_pred             EECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHH
Confidence            999999999999999999877643     579999999999987666677788888888888999999999999999999


Q ss_pred             HHHHHHcC
Q 028884          189 EEIAKRLP  196 (202)
Q Consensus       189 ~~l~~~i~  196 (202)
                      ++|++.+.
T Consensus       160 ~~l~~~l~  167 (168)
T cd04119         160 QTLFSSIV  167 (168)
T ss_pred             HHHHHHHh
Confidence            99998875

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.

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

Probab=100.00  E-value=8.3e-34  Score=187.79  Aligned_cols=167  Identities=35%  Similarity=0.645  Sum_probs=155.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      +.-+|++|+|...+|||||+.++.+..+...+..+.+.++..+++. .....+.+++|||.|+++|+.+...++++++++
T Consensus        19 DymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvy-r~~kRiklQiwDTagqEryrtiTTayyRgamgf   97 (193)
T KOG0093|consen   19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVY-RSDKRIKLQIWDTAGQERYRTITTAYYRGAMGF   97 (193)
T ss_pred             cceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEee-ecccEEEEEEEecccchhhhHHHHHHhhccceE
Confidence            4567999999999999999999999999999999999998887654 455669999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |+|||+++.+||..++.|.-.+...+..++|+|+|+||||+..++.+..+..+.++.+++..++++|++.+.|+..+|+.
T Consensus        98 iLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtSaK~NinVk~~Fe~  177 (193)
T KOG0093|consen   98 ILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISHERGRQLADQLGFEFFETSAKENINVKQVFER  177 (193)
T ss_pred             EEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCccceeeeHHHHHHHHHHhChHHhhhcccccccHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCC
Q 028884          191 IAKRLPRP  198 (202)
Q Consensus       191 l~~~i~~~  198 (202)
                      ++..|-+.
T Consensus       178 lv~~Ic~k  185 (193)
T KOG0093|consen  178 LVDIICDK  185 (193)
T ss_pred             HHHHHHHH
Confidence            99887554

>cd01868 Rab11_like Rab11-like

Probab=100.00  E-value=9e-33  Score=195.75  Aligned_cols=163  Identities=47%  Similarity=0.830  Sum_probs=144.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      ..++|+|+|.+++|||||+++|.++.+...+.++.+.++....+...+ ..+.+.+||+||.+++..++..+++.++++|
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i   80 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDG-KTIKAQIWDTAGQERYRAITSAYYRGAVGAL   80 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECC-EEEEEEEEeCCChHHHHHHHHHHHCCCCEEE
Confidence            458999999999999999999999988777778887777666666554 4478999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      +|||++++.++..+.+|+..+......+.|+++|+||.|+...+....++...++...+++++++||++|.|++++|++|
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  160 (165)
T cd01868          81 LVYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQL  160 (165)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHH
Confidence            99999999999999999999888765679999999999998777777778888888889999999999999999999999


Q ss_pred             HHHc
Q 028884          192 AKRL  195 (202)
Q Consensus       192 ~~~i  195 (202)
                      ++.+
T Consensus       161 ~~~i  164 (165)
T cd01868         161 LTEI  164 (165)
T ss_pred             HHHh
Confidence            9876

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

>cd01875 RhoG RhoG subfamily

Probab=100.00  E-value=5.7e-33  Score=201.20  Aligned_cols=164  Identities=31%  Similarity=0.595  Sum_probs=140.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .+||+++|..++|||||+.+|..+.+...+.++.+..+. ..+.+ ++..+.+.+|||+|++.|+.++..+++.+|++|+
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~-~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~il   80 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYS-AQTAV-DGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFII   80 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeeeE-EEEEE-CCEEEEEEEEECCCchhhhhhhhhhccCCCEEEE
Confidence            489999999999999999999999987777777765443 33444 4555999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCCC------------CCChHHHHHHHHHcC-CeEEEecc
Q 028884          113 VYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEKR------------EVPAQDGIEYAEKNG-MFFIETSA  178 (202)
Q Consensus       113 v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~~------------~~~~~~~~~~~~~~~-~~~~~~s~  178 (202)
                      |||++++.+|+.+. .|+..+... .++.|++||+||.|+.+..            .+..+++..+++..+ ++++++||
T Consensus        81 vydit~~~Sf~~~~~~w~~~i~~~-~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA  159 (191)
T cd01875          81 CFSIASPSSYENVRHKWHPEVCHH-CPNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSA  159 (191)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCC
Confidence            99999999999996 688877765 3579999999999986432            356678888998888 58999999


Q ss_pred             CCCCCHHHHHHHHHHHcCCCC
Q 028884          179 KTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       179 ~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      ++|.|++++|++|++.+..+.
T Consensus       160 k~g~~v~e~f~~l~~~~~~~~  180 (191)
T cd01875         160 LNQDGVKEVFAEAVRAVLNPT  180 (191)
T ss_pred             CCCCCHHHHHHHHHHHHhccc
Confidence            999999999999999887753

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

>cd01864 Rab19 Rab19 subfamily

Probab=100.00  E-value=1.2e-32  Score=195.21  Aligned_cols=163  Identities=43%  Similarity=0.770  Sum_probs=142.5

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.+||+|+|++|+|||||+++|..+.+...+.++.+.+.....+.+. +..+.+.+||+||++.+...+..+++.+|+++
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~l   80 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIE-GKRVKLQIWDTAGQERFRTITQSYYRSANGAI   80 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEEC-CEEEEEEEEECCChHHHHHHHHHHhccCCEEE
Confidence            56899999999999999999999988877777777666655666554 34478999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC-eEEEeccCCCCCHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM-FFIETSAKTADNINQLFEE  190 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~s~~~~~~i~~~~~~  190 (202)
                      +|||++++.++..+..|+..+......+.|+++|+||+|+.+.......++..+++..++ .++++|+++|.|++++|+.
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~  160 (165)
T cd01864          81 IAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLETSAKESQNVEEAFLL  160 (165)
T ss_pred             EEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHHHHHH
Confidence            999999999999999999999876667899999999999987777777888888888775 6899999999999999999


Q ss_pred             HHHHc
Q 028884          191 IAKRL  195 (202)
Q Consensus       191 l~~~i  195 (202)
                      |.+.+
T Consensus       161 l~~~l  165 (165)
T cd01864         161 MATEL  165 (165)
T ss_pred             HHHhC
Confidence            98753

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.

>cd04111 Rab39 Rab39 subfamily

Probab=100.00  E-value=8e-33  Score=203.17  Aligned_cols=166  Identities=37%  Similarity=0.694  Sum_probs=147.2

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .+||+|+|.+|+|||||+++|.++.+...+.++.+.++....+.+.++..+.+.+||++|++.+..++..+++.+|++|+
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iil   81 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLL   81 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEE
Confidence            58999999999999999999999988777777877777777777666666899999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcC-CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHG-SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      |||++++.+|..+.+|+..+.... ....|++||+||.|+.+...+..++...+++.++++++++|++++.|++++|++|
T Consensus        82 v~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l  161 (211)
T cd04111          82 VFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELL  161 (211)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHH
Confidence            999999999999999999887653 3457789999999998777778888889999999999999999999999999999


Q ss_pred             HHHcCCC
Q 028884          192 AKRLPRP  198 (202)
Q Consensus       192 ~~~i~~~  198 (202)
                      ++.+.+.
T Consensus       162 ~~~~~~~  168 (211)
T cd04111         162 TQEIYER  168 (211)
T ss_pred             HHHHHHH
Confidence            9877543

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.

>cd04113 Rab4 Rab4 subfamily

Probab=100.00  E-value=1.3e-32  Score=194.19  Aligned_cols=161  Identities=43%  Similarity=0.786  Sum_probs=143.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|++|+|||||+++|.++.+.....++.+.++....+.+.+ ..+.+.+||+||++.+...+..+++.+|++|+|
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v   79 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGG-KRVKLQIWDTAGQERFRSVTRSYYRGAAGALLV   79 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECC-EEEEEEEEECcchHHHHHhHHHHhcCCCEEEEE
Confidence            5899999999999999999999988777777777766666666553 448899999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      ||++++.++..+..|+..++....++.|+++|+||.|+.+......++...+++..++.++++|++++.|+.++|+++++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~~  159 (161)
T cd04113          80 YDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCAR  159 (161)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            99999999999999999888777789999999999999877777788888899999999999999999999999999987


Q ss_pred             Hc
Q 028884          194 RL  195 (202)
Q Consensus       194 ~i  195 (202)
                      .+
T Consensus       160 ~~  161 (161)
T cd04113         160 SI  161 (161)
T ss_pred             hC
Confidence            64

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

>cd01866 Rab2 Rab2 subfamily

Probab=100.00  E-value=1.7e-32  Score=195.02  Aligned_cols=166  Identities=40%  Similarity=0.799  Sum_probs=146.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      +..+||+|+|.+|+|||||++++.++.+...+.++.+.+.....+... +..+.+.+||++|.+++..+...+++.+|++
T Consensus         2 ~~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~i   80 (168)
T cd01866           2 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITID-GKQIKLQIWDTAGQESFRSITRSYYRGAAGA   80 (168)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEEC-CEEEEEEEEECCCcHHHHHHHHHHhccCCEE
Confidence            346899999999999999999999988877777777776666666554 4447999999999999999889999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      ++|||++++.++..+..|+..++....++.|+++|+||.|+.+......++...++...++.++++|++++.|+.++|.+
T Consensus        81 l~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~~~~  160 (168)
T cd01866          81 LLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEAFIN  160 (168)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999998876678999999999999866667778888888889999999999999999999999


Q ss_pred             HHHHcCC
Q 028884          191 IAKRLPR  197 (202)
Q Consensus       191 l~~~i~~  197 (202)
                      +.+.+.+
T Consensus       161 ~~~~~~~  167 (168)
T cd01866         161 TAKEIYE  167 (168)
T ss_pred             HHHHHHh
Confidence            9988754

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

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

Probab=100.00  E-value=1.2e-33  Score=190.17  Aligned_cols=165  Identities=39%  Similarity=0.712  Sum_probs=154.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      ++++++|+|+.-+|||+|++.|..+++....+|+.+.++....+.+..+..+.+++|||.|+++|++....|++++-+++
T Consensus         7 yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgvl   86 (213)
T KOG0091|consen    7 YQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGVL   86 (213)
T ss_pred             EEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccceE
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCe-EEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIV-MALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|||+++..||+.+..|++..... ..|+.+ +.+|++|+|+...+++..++++.+++.++..++++|+++|.|++++|+
T Consensus        87 lvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~hgM~FVETSak~g~NVeEAF~  166 (213)
T KOG0091|consen   87 LVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAASHGMAFVETSAKNGCNVEEAFD  166 (213)
T ss_pred             EEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHHhcCceEEEecccCCCcHHHHHH
Confidence            999999999999999999987766 336655 577899999999999999999999999999999999999999999999


Q ss_pred             HHHHHcC
Q 028884          190 EIAKRLP  196 (202)
Q Consensus       190 ~l~~~i~  196 (202)
                      .|.+.+.
T Consensus       167 mlaqeIf  173 (213)
T KOG0091|consen  167 MLAQEIF  173 (213)
T ss_pred             HHHHHHH
Confidence            9887664

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

Probab=100.00  E-value=1e-32  Score=194.89  Aligned_cols=161  Identities=36%  Similarity=0.749  Sum_probs=148.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      ||+|+|++++|||||+++|.++.+...+.++.+.+.....+... +..+.+.+||++|++.+..+...+++.+|++|+||
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~f   79 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSID-GKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVF   79 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEET-TEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccc-ccccccccccccccccccccccccccccccccccc
Confidence            79999999999999999999999988888888778777777766 55589999999999999988889999999999999


Q ss_pred             eCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 028884          115 DITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKR  194 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~  194 (202)
                      |.+++.|+..+..|+..+......+.|++|++||.|+.+.+.+..+++..+++.++.+|+++|++++.|+.++|..+++.
T Consensus        80 d~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i~~  159 (162)
T PF00071_consen   80 DVTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEIFQELIRK  159 (162)
T ss_dssp             ETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            99999999999999999998866679999999999998878889999999999999999999999999999999999987


Q ss_pred             cC
Q 028884          195 LP  196 (202)
Q Consensus       195 i~  196 (202)
                      +.
T Consensus       160 i~  161 (162)
T PF00071_consen  160 IL  161 (162)
T ss_dssp             HH
T ss_pred             Hh
Confidence            64

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 ....

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

Probab=100.00  E-value=5.4e-33  Score=194.93  Aligned_cols=172  Identities=47%  Similarity=0.806  Sum_probs=161.4

Q ss_pred             CCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhccccccc
Q 028884           26 SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR  105 (202)
Q Consensus        26 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~  105 (202)
                      .+...++.+||+++|++++|||-|+.+|..+.+......+++.++....+.+.+ ..+..+||||.|+++|++....|++
T Consensus         7 ~~~~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~-k~vkaqIWDTAGQERyrAitSaYYr   85 (222)
T KOG0087|consen    7 KSEEYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDG-KTVKAQIWDTAGQERYRAITSAYYR   85 (222)
T ss_pred             CccccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecC-cEEEEeeecccchhhhccccchhhc
Confidence            345668899999999999999999999999999999999999999998888765 4499999999999999999999999


Q ss_pred             CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHH
Q 028884          106 GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNIN  185 (202)
Q Consensus       106 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~  185 (202)
                      ++.++++|||++...+|+.+..||..++.+..+++++++|+||+||...+.+..+++..++...+..++++||.++.|+.
T Consensus        86 gAvGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~lraV~te~~k~~Ae~~~l~f~EtSAl~~tNVe  165 (222)
T KOG0087|consen   86 GAVGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHLRAVPTEDGKAFAEKEGLFFLETSALDATNVE  165 (222)
T ss_pred             ccceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhccccchhhhHhHHHhcCceEEEecccccccHH
Confidence            99999999999999999999999999999999999999999999999889999999999999999999999999999999


Q ss_pred             HHHHHHHHHcCCC
Q 028884          186 QLFEEIAKRLPRP  198 (202)
Q Consensus       186 ~~~~~l~~~i~~~  198 (202)
                      .+|..++..|++.
T Consensus       166 ~aF~~~l~~I~~~  178 (222)
T KOG0087|consen  166 KAFERVLTEIYKI  178 (222)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999998887653

>cd04125 RabA_like RabA-like subfamily

Probab=100.00  E-value=1.4e-32  Score=198.74  Aligned_cols=164  Identities=34%  Similarity=0.657  Sum_probs=144.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|.+|+|||||+++|.++.+...+.++.+.++....+.+.+. .+.+.+||++|.+.+..++..+++.+|++|+|
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~-~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv   79 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENK-IIKLQIWDTNGQERFRSLNNSYYRGAHGYLLV   79 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCE-EEEEEEEECCCcHHHHhhHHHHccCCCEEEEE
Confidence            58999999999999999999999887767777777666666665443 58899999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      ||++++.++..+..|+..+........|+++|+||.|+.+...+...+...++...+++++++||+++.|++++|++|++
T Consensus        80 ~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~~~f~~l~~  159 (188)
T cd04125          80 YDVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAKQSINVEEAFILLVK  159 (188)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999999998776667899999999999877777778888888888899999999999999999999998


Q ss_pred             HcCCC
Q 028884          194 RLPRP  198 (202)
Q Consensus       194 ~i~~~  198 (202)
                      .+.++
T Consensus       160 ~~~~~  164 (188)
T cd04125         160 LIIKR  164 (188)
T ss_pred             HHHHH
Confidence            87654

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.

>cd04128 Spg1 Spg1p

Probab=100.00  E-value=1.5e-32  Score=197.37  Aligned_cols=163  Identities=27%  Similarity=0.525  Sum_probs=138.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|..|+|||||+++|..+.+...+.++.+.++..+.+.+.+ ..+.+.+||++|++.|..++..+++.+|++++|
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~-~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv   79 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRG-TEITFSIWDLGGQREFINMLPLVCNDAVAILFM   79 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECC-EEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEE
Confidence            5899999999999999999999998887888887777666666654 458999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC-----CCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK-----REVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~-----~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      ||++++.++..+..|+..+........| ++|+||+|+...     ......+...+++..+++++++||++|.|++++|
T Consensus        80 ~D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g~~v~~lf  158 (182)
T cd04128          80 FDLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIF  158 (182)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            9999999999999999998776444566 678999998531     1123456677888888999999999999999999


Q ss_pred             HHHHHHcCCC
Q 028884          189 EEIAKRLPRP  198 (202)
Q Consensus       189 ~~l~~~i~~~  198 (202)
                      +++++.+.+-
T Consensus       159 ~~l~~~l~~~  168 (182)
T cd04128         159 KIVLAKAFDL  168 (182)
T ss_pred             HHHHHHHHhc
Confidence            9999887653

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

>PLN03110 Rab GTPase; Provisional

Probab=100.00  E-value=1.6e-32  Score=202.30  Aligned_cols=167  Identities=46%  Similarity=0.773  Sum_probs=149.2

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      .++.+||+++|++|+|||||+++|.++.+...+.++.+.+.....+.+.+ ..+.+.+||++|++++..++..+++.+++
T Consensus         9 ~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~-~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~   87 (216)
T PLN03110          9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEG-KTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (216)
T ss_pred             cCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECC-EEEEEEEEECCCcHHHHHHHHHHhCCCCE
Confidence            34679999999999999999999999888777777777777677776654 45899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|+|||++++.+|+.+..|+..+......+.|+++|+||+|+.+...+..++...++...+++++++||+++.|++++|+
T Consensus        88 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~v~~lf~  167 (216)
T PLN03110         88 ALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQ  167 (216)
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999999887667899999999999987777778888889888999999999999999999999


Q ss_pred             HHHHHcCC
Q 028884          190 EIAKRLPR  197 (202)
Q Consensus       190 ~l~~~i~~  197 (202)
                      +|++.+.+
T Consensus       168 ~l~~~i~~  175 (216)
T PLN03110        168 TILLEIYH  175 (216)
T ss_pred             HHHHHHHH
Confidence            99988755

>cd04110 Rab35 Rab35 subfamily

Probab=100.00  E-value=2.1e-32  Score=199.51  Aligned_cols=167  Identities=38%  Similarity=0.691  Sum_probs=145.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      +..++|+|+|++|+|||||+++|.++.+...+.++.+.++....+... +..+.+.+||+||++.+..++..+++.+|++
T Consensus         4 ~~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~i   82 (199)
T cd04110           4 DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEIN-GERVKLQIWDTAGQERFRTITSTYYRGTHGV   82 (199)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEEC-CEEEEEEEEeCCCchhHHHHHHHHhCCCcEE
Confidence            357999999999999999999999988877777777766665666554 3447899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      ++|||++++++|+.+..|+..+... ....|++||+||+|+.+.......+...++...+++++++|+++|.|+.++|++
T Consensus        83 ilv~D~~~~~s~~~~~~~~~~i~~~-~~~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~lf~~  161 (199)
T cd04110          83 IVVYDVTNGESFVNVKRWLQEIEQN-CDDVCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNC  161 (199)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHh-CCCCCEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHHHHH
Confidence            9999999999999999999998776 357899999999999877667778888888888999999999999999999999


Q ss_pred             HHHHcCCCC
Q 028884          191 IAKRLPRPS  199 (202)
Q Consensus       191 l~~~i~~~~  199 (202)
                      |...+.+.+
T Consensus       162 l~~~~~~~~  170 (199)
T cd04110         162 ITELVLRAK  170 (199)
T ss_pred             HHHHHHHhh
Confidence            999887654

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

>cd04136 Rap_like Rap-like subfamily

Probab=100.00  E-value=1.4e-32  Score=194.18  Aligned_cols=160  Identities=35%  Similarity=0.573  Sum_probs=136.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|.+|+|||||++++..+.+...+.++... .....+... +..+.+.+||++|.+++..++..+++.+|++++|
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~-~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   79 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIED-SYRKQIEVD-GQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLV   79 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCchhh-hEEEEEEEC-CEEEEEEEEECCCccccchHHHHHhhcCCEEEEE
Confidence            79999999999999999999998877666666543 223444443 4458899999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      ||++++.+++.+..|+..+... ...+.|+++|+||+|+.+......++...+++..+.+++++||+++.|+.++|++|+
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (163)
T cd04136          80 YSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDEVFADLV  159 (163)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Confidence            9999999999999999888765 346799999999999876666666777778888889999999999999999999998


Q ss_pred             HHc
Q 028884          193 KRL  195 (202)
Q Consensus       193 ~~i  195 (202)
                      +.+
T Consensus       160 ~~~  162 (163)
T cd04136         160 RQI  162 (163)
T ss_pred             Hhc
Confidence            865

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.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=100.00  E-value=4.6e-32  Score=191.45  Aligned_cols=160  Identities=34%  Similarity=0.639  Sum_probs=141.0

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEec-CCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ-DSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      +||+++|.+++|||||+++|.++.+...+.++.+.++....+.+. .+..+.+++||+||++.+..++..+++.+|++++
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~   80 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACIL   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEE
Confidence            589999999999999999999988877777777777766666654 1445899999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      |||+++++++..+..|+..+... ..+.|+++|+||.|+..+..+..++...+++..+++++++|++++.|++++|++|.
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~-~~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (162)
T cd04106          81 VFSTTDRESFEAIESWKEKVEAE-CGDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLA  159 (162)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHh-CCCCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            99999999999999999988765 35799999999999987777777888889999999999999999999999999998


Q ss_pred             HH
Q 028884          193 KR  194 (202)
Q Consensus       193 ~~  194 (202)
                      ..
T Consensus       160 ~~  161 (162)
T cd04106         160 EK  161 (162)
T ss_pred             Hh
Confidence            64

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=100.00  E-value=4.2e-32  Score=191.95  Aligned_cols=164  Identities=45%  Similarity=0.835  Sum_probs=143.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|++|+|||||+++|.+..+.....++.+.+.....+... +..+.+.+||+||++.+...+..+++.+|++|+|
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv   79 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVD-GKRVKLQIWDTAGQERFRSITSSYYRGAVGALLV   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEEC-CEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEE
Confidence            589999999999999999999988877777777776666666554 4447899999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      ||++++.+++.+..|+..+.....+++|+++|+||+|+........+....++...+++++++|++++.|++++|++|.+
T Consensus        80 ~d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~~  159 (164)
T smart00175       80 YDITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAR  159 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999999988776678999999999998776666777788888888999999999999999999999999


Q ss_pred             HcCCC
Q 028884          194 RLPRP  198 (202)
Q Consensus       194 ~i~~~  198 (202)
                      .+.++
T Consensus       160 ~~~~~  164 (164)
T smart00175      160 EILKR  164 (164)
T ss_pred             HHhhC
Confidence            88653

Rab GTPases are implicated in vesicle trafficking.

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

Probab=100.00  E-value=5.9e-33  Score=185.03  Aligned_cols=169  Identities=41%  Similarity=0.729  Sum_probs=157.1

Q ss_pred             CCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccC
Q 028884           27 SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRG  106 (202)
Q Consensus        27 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~  106 (202)
                      ++..++.+|++++|+.|+|||.|+++|...++.....-+++.++..+.+.... +.+.++||||.|+++|++..+.|+++
T Consensus         3 sEtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGg-K~vKLQIWDTAGQErFRSVtRsYYRG   81 (214)
T KOG0086|consen    3 SETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGG-KTVKLQIWDTAGQERFRSVTRSYYRG   81 (214)
T ss_pred             chhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecC-cEEEEEEeecccHHHHHHHHHHHhcc
Confidence            45667899999999999999999999999999888888899988888777654 55999999999999999999999999


Q ss_pred             ccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 028884          107 AAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQ  186 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~  186 (202)
                      +.++++|||++++++|..+..|+..++....+++.+++++||.|+.+.+++...++..++++..+.+.++|+++|+|+.+
T Consensus        82 AAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVEE  161 (214)
T KOG0086|consen   82 AAGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEE  161 (214)
T ss_pred             ccceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccccHHH
Confidence            99999999999999999999999999999889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHcC
Q 028884          187 LFEEIAKRLP  196 (202)
Q Consensus       187 ~~~~l~~~i~  196 (202)
                      +|-..+..|.
T Consensus       162 aFl~c~~tIl  171 (214)
T KOG0086|consen  162 AFLKCARTIL  171 (214)
T ss_pred             HHHHHHHHHH
Confidence            9988777664

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=100.00  E-value=5.3e-32  Score=199.83  Aligned_cols=164  Identities=29%  Similarity=0.532  Sum_probs=141.2

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...+||+++|.+|||||||+++|..+.+...+.++.+.+.....+...+ ..+.+.+||++|.+.+..++..+++.+|++
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~-~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~   89 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNC-GKIRFYCWDTAGQEKFGGLRDGYYIHGQCA   89 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECC-eEEEEEEEECCCchhhhhhhHHHcccccEE
Confidence            5679999999999999999999999988888888887777666655544 348999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |+|||++++.++..+..|+..+.... ++.|+++|+||+|+... .+...+. .+++..+++++++||++|.|+.++|++
T Consensus        90 ilvfD~~~~~s~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~~-~v~~~~~-~~~~~~~~~~~e~SAk~~~~i~~~f~~  166 (219)
T PLN03071         90 IIMFDVTARLTYKNVPTWHRDLCRVC-ENIPIVLCGNKVDVKNR-QVKAKQV-TFHRKKNLQYYEISAKSNYNFEKPFLY  166 (219)
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEEchhhhhc-cCCHHHH-HHHHhcCCEEEEcCCCCCCCHHHHHHH
Confidence            99999999999999999999998763 57999999999998543 3333444 677778899999999999999999999


Q ss_pred             HHHHcCCC
Q 028884          191 IAKRLPRP  198 (202)
Q Consensus       191 l~~~i~~~  198 (202)
                      |++.+.+.
T Consensus       167 l~~~~~~~  174 (219)
T PLN03071        167 LARKLAGD  174 (219)
T ss_pred             HHHHHHcC
Confidence            99988654

>cd01874 Cdc42 Cdc42 subfamily

Probab=100.00  E-value=4.7e-32  Score=193.80  Aligned_cols=159  Identities=30%  Similarity=0.572  Sum_probs=135.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|.+|+|||||+++|..+.+...+.++.+..+. ..+.. ++..+.+.+||++|++.+..++..+++.+|++|+|
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv   79 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVC   79 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEE-CCEEEEEEEEECCCccchhhhhhhhcccCCEEEEE
Confidence            79999999999999999999999887777777765553 23444 35558999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcC-CeEEEeccC
Q 028884          114 YDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNG-MFFIETSAK  179 (202)
Q Consensus       114 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~s~~  179 (202)
                      ||.+++.+|+.+. .|+..+... .++.|++||+||+|+.+.            +.+..+++.++++..+ +.++++||+
T Consensus        80 ~d~~~~~s~~~~~~~w~~~i~~~-~~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~  158 (175)
T cd01874          80 FSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSAL  158 (175)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCC
Confidence            9999999999996 598888765 357999999999998543            4566777888888876 689999999


Q ss_pred             CCCCHHHHHHHHHHHc
Q 028884          180 TADNINQLFEEIAKRL  195 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i  195 (202)
                      +|.|+.++|+.++...
T Consensus       159 tg~~v~~~f~~~~~~~  174 (175)
T cd01874         159 TQKGLKNVFDEAILAA  174 (175)
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            9999999999998754

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

>cd04175 Rap1 Rap1 subgroup

Probab=100.00  E-value=3.3e-32  Score=192.68  Aligned_cols=162  Identities=35%  Similarity=0.592  Sum_probs=138.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      ++||+++|.+|+|||||++++..+.+...+.++....+ ...+... +..+.+.+||++|++.+..++..+++.+|++++
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~il   78 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVD-GQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVL   78 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEEC-CEEEEEEEEECCCcccchhHHHHHHhhCCEEEE
Confidence            37999999999999999999998887666666655443 3344443 445889999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      |||.++..+++.+.+|+..+... ...+.|+++|+||+|+.........+...+++..+++++++||+++.|++++|.+|
T Consensus        79 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l  158 (164)
T cd04175          79 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDL  158 (164)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHH
Confidence            99999999999999999888764 34689999999999998766666677778888888999999999999999999999


Q ss_pred             HHHcC
Q 028884          192 AKRLP  196 (202)
Q Consensus       192 ~~~i~  196 (202)
                      ++.+.
T Consensus       159 ~~~l~  163 (164)
T cd04175         159 VRQIN  163 (164)
T ss_pred             HHHhh
Confidence            98764

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

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

Probab=100.00  E-value=6.3e-32  Score=191.64  Aligned_cols=161  Identities=31%  Similarity=0.602  Sum_probs=136.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|++|||||||++++..+.+...+.++.+.+.....+.. ++..+.+.+||++|++.+..++..++..+|++|+|
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v   79 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHT-NRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIM   79 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEE-CCEEEEEEEEECCCChhhccccHHHhcCCCEEEEE
Confidence            58999999999999999999988877777777766665555544 34558999999999999988888999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      ||.+++.+++.+..|+..+..... ++|+++|+||+|+.+. ... .+...++....++++++||++|.|+.++|++|++
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~-~~piiiv~nK~Dl~~~-~~~-~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~  156 (166)
T cd00877          80 FDVTSRVTYKNVPNWHRDLVRVCG-NIPIVLCGNKVDIKDR-KVK-AKQITFHRKKNLQYYEISAKSNYNFEKPFLWLAR  156 (166)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEchhcccc-cCC-HHHHHHHHHcCCEEEEEeCCCCCChHHHHHHHHH
Confidence            999999999999999999988754 8999999999998733 232 3445667777889999999999999999999999


Q ss_pred             HcCCC
Q 028884          194 RLPRP  198 (202)
Q Consensus       194 ~i~~~  198 (202)
                      .+.+.
T Consensus       157 ~~~~~  161 (166)
T cd00877         157 KLLGN  161 (166)
T ss_pred             HHHhc
Confidence            88763

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

>cd04112 Rab26 Rab26 subfamily

Probab=100.00  E-value=5.7e-32  Score=196.08  Aligned_cols=164  Identities=41%  Similarity=0.733  Sum_probs=140.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      +||+|+|.+|+|||||+++|..+.+.. .+.++.+.++....+.+. +..+.+.+||+||++.+...+..+++.+|++|+
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~   79 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVD-GVKVKLQIWDTAGQERFRSVTHAYYRDAHALLL   79 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEEC-CEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEE
Confidence            589999999999999999999988753 445555555544445443 445899999999999999888899999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      |||++++.+++.+..|+..+......+.|+++|+||.|+...+.+...+...++...+++++++|+++|.|+.++|++|+
T Consensus        80 v~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l~  159 (191)
T cd04112          80 LYDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVA  159 (191)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999999999887666899999999999976666777788888888899999999999999999999999


Q ss_pred             HHcCCC
Q 028884          193 KRLPRP  198 (202)
Q Consensus       193 ~~i~~~  198 (202)
                      +.+.+.
T Consensus       160 ~~~~~~  165 (191)
T cd04112         160 KELKHR  165 (191)
T ss_pred             HHHHHh
Confidence            888765

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.

>PTZ00369 Ras-like protein; Provisional

Probab=100.00  E-value=5e-32  Score=196.03  Aligned_cols=165  Identities=33%  Similarity=0.546  Sum_probs=140.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.+||+|+|.+|+|||||+++|..+.+...+.++.+..+ ...+... +..+.+.+|||+|++++..++..+++.+|++|
T Consensus         4 ~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~-~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~ii   81 (189)
T PTZ00369          4 TEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVID-EETCLLDILDTAGQEEYSAMRDQYMRTGQGFL   81 (189)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEEC-CEEEEEEEEeCCCCccchhhHHHHhhcCCEEE
Confidence            468999999999999999999999888767666665544 3444444 44588999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      +|||++++.+|+.+..|+..+.+. ...+.|+++|+||+|+.+...+...+...++...+++++++||+++.|+.++|++
T Consensus        82 lv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi~~~~~~  161 (189)
T PTZ00369         82 CVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYE  161 (189)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHH
Confidence            999999999999999999988765 3458899999999998766666777788888888899999999999999999999


Q ss_pred             HHHHcCCC
Q 028884          191 IAKRLPRP  198 (202)
Q Consensus       191 l~~~i~~~  198 (202)
                      |++.+.+.
T Consensus       162 l~~~l~~~  169 (189)
T PTZ00369        162 LVREIRKY  169 (189)
T ss_pred             HHHHHHHH
Confidence            99877543

>cd01860 Rab5_related Rab5-related subfamily

Probab=100.00  E-value=1.7e-31  Score=188.74  Aligned_cols=162  Identities=65%  Similarity=1.073  Sum_probs=142.9

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      ++||+|+|++|+|||||+++|.++.+.....++.+..+....+.+.. ..+.+.+||+||++++...+..+++.+|++++
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~   79 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDD-TTVKFEIWDTAGQERYRSLAPMYYRGAAAAIV   79 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECC-EEEEEEEEeCCchHHHHHHHHHHhccCCEEEE
Confidence            47999999999999999999999988776666766666666666554 44899999999999999889999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      |+|++++.++.....|+..+.....+..|+++++||+|+.........+...++...++.++++|+++|.|+.++|++|+
T Consensus        80 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (163)
T cd01860          80 VYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGENVNELFTEIA  159 (163)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHH
Confidence            99999999999999999999887667899999999999876666777788888888899999999999999999999999


Q ss_pred             HHc
Q 028884          193 KRL  195 (202)
Q Consensus       193 ~~i  195 (202)
                      +.+
T Consensus       160 ~~l  162 (163)
T cd01860         160 KKL  162 (163)
T ss_pred             HHh
Confidence            876

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

>cd04124 RabL2 RabL2 subfamily

Probab=100.00  E-value=9.8e-32  Score=189.78  Aligned_cols=161  Identities=32%  Similarity=0.556  Sum_probs=134.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|.+|+|||||+++|..+.+.+...++............. +..+.+.+||++|++.+..++..+++.+|++|+|
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v   79 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFE-GKTILVDFWDTAGQERFQTMHASYYHKAHACILV   79 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEEC-CEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEE
Confidence            589999999999999999999988877766665555444444443 4558999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      ||++++.++..+..|+..+... .++.|+++|+||+|+...   ...+...++...+++++++||++|.|++++|+.+++
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~-~~~~p~ivv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~  155 (161)
T cd04124          80 FDVTRKITYKNLSKWYEELREY-RPEIPCIVVANKIDLDPS---VTQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIK  155 (161)
T ss_pred             EECCCHHHHHHHHHHHHHHHHh-CCCCcEEEEEECccCchh---HHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            9999999999999999998765 357899999999998432   133455666677889999999999999999999999


Q ss_pred             HcCCCC
Q 028884          194 RLPRPS  199 (202)
Q Consensus       194 ~i~~~~  199 (202)
                      .+.+++
T Consensus       156 ~~~~~~  161 (161)
T cd04124         156 LAVSYK  161 (161)
T ss_pred             HHHhcC
Confidence            887653

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

>cd04144 Ras2 Ras2 subfamily

Probab=100.00  E-value=4.7e-32  Score=196.36  Aligned_cols=162  Identities=34%  Similarity=0.566  Sum_probs=138.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      +|+|+|.+|+|||||+++|..+.+...+.++.+..+ .....+ ++..+.+.+||++|+++|..++..+++.+|++|+||
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~   78 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVV-DGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVY   78 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhE-EEEEEE-CCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEE
Confidence            589999999999999999999888776666665443 233333 345578999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHHHHHHHHcC---CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          115 DITSPDSFNKAQYWVKELQKHG---SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~~i~~~~---~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      |++++.+|+.+..|+..+....   ..+.|+++|+||+|+.....+...+...++...+++++++||++|.|++++|+++
T Consensus        79 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l  158 (190)
T cd04144          79 SITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTL  158 (190)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHH
Confidence            9999999999999998886653   2578999999999997777777777888888889999999999999999999999


Q ss_pred             HHHcCCC
Q 028884          192 AKRLPRP  198 (202)
Q Consensus       192 ~~~i~~~  198 (202)
                      ++.+.++
T Consensus       159 ~~~l~~~  165 (190)
T cd04144         159 VRALRQQ  165 (190)
T ss_pred             HHHHHHh
Confidence            9887644

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.

>cd04116 Rab9 Rab9 subfamily

Probab=100.00  E-value=2.2e-31  Score=189.55  Aligned_cols=163  Identities=34%  Similarity=0.661  Sum_probs=138.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...+||+++|.+|+|||||+++|.++.+...+.++.+.......+... +..+.+.+||+||++++..++..+++.+|++
T Consensus         3 ~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~   81 (170)
T cd04116           3 SSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVD-GHFVTLQIWDTAGQERFRSLRTPFYRGSDCC   81 (170)
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEEC-CeEEEEEEEeCCChHHHHHhHHHHhcCCCEE
Confidence            457999999999999999999999988877766666666555555554 4458999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcC----CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcC-CeEEEeccCCCCCHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHG----SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNG-MFFIETSAKTADNIN  185 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~----~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~s~~~~~~i~  185 (202)
                      ++|||++++.+++.+..|+..+....    ..+.|+++|+||.|+. ...+..++..+++...+ .+++++||++|.|+.
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~  160 (170)
T cd04116          82 LLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDYPYFETSAKDATNVA  160 (170)
T ss_pred             EEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc-ccccCHHHHHHHHHHCCCCeEEEEECCCCCCHH
Confidence            99999999999999999998776543    2568999999999986 44566778888888887 479999999999999


Q ss_pred             HHHHHHHHHc
Q 028884          186 QLFEEIAKRL  195 (202)
Q Consensus       186 ~~~~~l~~~i  195 (202)
                      ++|+.+++.+
T Consensus       161 ~~~~~~~~~~  170 (170)
T cd04116         161 AAFEEAVRRV  170 (170)
T ss_pred             HHHHHHHhhC
Confidence            9999998753

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=100.00  E-value=2.3e-31  Score=188.27  Aligned_cols=162  Identities=30%  Similarity=0.539  Sum_probs=139.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC--CCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG--QFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +||+|+|.+|||||||+++|..+  .+...+.++.+.+.....+....+..+.+.+||++|++.+..++..+++.+|+++
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFI   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEE
Confidence            58999999999999999999864  5666666777666666666666566689999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      +|||++++.++..+..|++.+.... .+.|+++|+||+|+.+...+...+...+....+++++++|++++.|+.++|+.|
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  159 (164)
T cd04101          81 LVYDVSNKASFENCSRWVNKVRTAS-KHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGYEEPFESL  159 (164)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHHHHHHH
Confidence            9999999999999999999887763 579999999999987766666666677777788899999999999999999999


Q ss_pred             HHHcC
Q 028884          192 AKRLP  196 (202)
Q Consensus       192 ~~~i~  196 (202)
                      ++.+.
T Consensus       160 ~~~~~  164 (164)
T cd04101         160 ARAFH  164 (164)
T ss_pred             HHHhC
Confidence            98763

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.

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=100.00  E-value=1.5e-31  Score=190.50  Aligned_cols=163  Identities=36%  Similarity=0.709  Sum_probs=141.9

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh-hcccccccCccEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA-ALAPLYYRGAAVAV  111 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~~i  111 (202)
                      .++|+++|++|+|||||++++..+.+...+.++.+.+.....+.+.+ ..+.+.+||++|++.++ .++..+++.+|+++
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i   80 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDG-ERIKVQLWDTAGQERFRKSMVQHYYRNVHAVV   80 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECC-eEEEEEEEeCCChHHHHHhhHHHhhcCCCEEE
Confidence            58999999999999999999999888777777777666666666544 44899999999999886 57888899999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCC---CCCHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT---ADNINQL  187 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~---~~~i~~~  187 (202)
                      +|||++++.++..+..|+..+... ...++|+++|+||+|+.....+...+...++...+++++++||++   +.++.++
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~i~~~  160 (170)
T cd04115          81 FVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAI  160 (170)
T ss_pred             EEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCCHHHH
Confidence            999999999999999999888765 346799999999999987777777888889988899999999999   8999999


Q ss_pred             HHHHHHHcC
Q 028884          188 FEEIAKRLP  196 (202)
Q Consensus       188 ~~~l~~~i~  196 (202)
                      |..|++.+.
T Consensus       161 f~~l~~~~~  169 (170)
T cd04115         161 FMTLAHKLK  169 (170)
T ss_pred             HHHHHHHhh
Confidence            999998764

Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine

>cd04176 Rap2 Rap2 subgroup

Probab=100.00  E-value=8.4e-32  Score=190.39  Aligned_cols=161  Identities=35%  Similarity=0.599  Sum_probs=136.7

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .++|+++|.+|+|||||++++..+.+...+.++.. ......+... +..+.+.+||++|.+++..++..+++.+|++++
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~   78 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVD-SSPSVLEILDTAGTEQFASMRDLYIKNGQGFIV   78 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEEC-CEEEEEEEEECCCcccccchHHHHHhhCCEEEE
Confidence            37999999999999999999999988777666554 3333444443 445789999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      |||++++.++..+..|+..+... ...++|+++|+||+|+.....+...+...++...+++++++||+++.|+.++|.++
T Consensus        79 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  158 (163)
T cd04176          79 VYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEI  158 (163)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHH
Confidence            99999999999999999888765 34689999999999987666666667777887788899999999999999999999


Q ss_pred             HHHc
Q 028884          192 AKRL  195 (202)
Q Consensus       192 ~~~i  195 (202)
                      ++.+
T Consensus       159 ~~~l  162 (163)
T cd04176         159 VRQM  162 (163)
T ss_pred             HHhc
Confidence            8765

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=100.00  E-value=1.6e-31  Score=190.25  Aligned_cols=162  Identities=31%  Similarity=0.612  Sum_probs=138.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      ||+++|.+|+|||||+++|..+.+...+.++.+..+....+.+. +..+.+++||++|.++|..++..+++.+|++++||
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~   80 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEIL-GVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVF   80 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEEC-CEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEE
Confidence            79999999999999999999999888888888777766666664 44589999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHHHHHHHHcC-CCCCeEEEEEeCCCCCCCCC--CChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          115 DITSPDSFNKAQYWVKELQKHG-SPDIVMALVGNKADLHEKRE--VPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      |++++.++..+..|+..+.... ....|+++|+||.|+.+...  ....++..++.+.+.+++++||++|.|+.++|+.|
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~v~~lf~~l  160 (170)
T cd04108          81 DLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSALSGENVREFFFRV  160 (170)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHH
Confidence            9999999999999999876543 33578999999999865433  34556677788888899999999999999999999


Q ss_pred             HHHcCC
Q 028884          192 AKRLPR  197 (202)
Q Consensus       192 ~~~i~~  197 (202)
                      +..+.+
T Consensus       161 ~~~~~~  166 (170)
T cd04108         161 AALTFE  166 (170)
T ss_pred             HHHHHH
Confidence            988754

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

>PLN03108 Rab family protein; Provisional

Probab=100.00  E-value=1.3e-31  Score=196.67  Aligned_cols=166  Identities=38%  Similarity=0.801  Sum_probs=146.5

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.+||+|+|++|+|||||+++|....+...+.++.+.++....+.+.+ ..+.+.+||++|.+.+..++..+++.+|++
T Consensus         4 ~~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~-~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~   82 (210)
T PLN03108          4 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDN-KPIKLQIWDTAGQESFRSITRSYYRGAAGA   82 (210)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECC-EEEEEEEEeCCCcHHHHHHHHHHhccCCEE
Confidence            3569999999999999999999999888777777777766666666544 447899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |+|||++++.++..+..|+..+.....++.|+++|+||+|+.....+..++..++++..+++++++|++++.|+.++|++
T Consensus        83 vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~e~f~~  162 (210)
T PLN03108         83 LLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIK  162 (210)
T ss_pred             EEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999998887766678999999999999877778888889999999999999999999999999999


Q ss_pred             HHHHcCC
Q 028884          191 IAKRLPR  197 (202)
Q Consensus       191 l~~~i~~  197 (202)
                      +++.+.+
T Consensus       163 l~~~~~~  169 (210)
T PLN03108        163 TAAKIYK  169 (210)
T ss_pred             HHHHHHH
Confidence            9988764

>cd01861 Rab6 Rab6 subfamily

Probab=100.00  E-value=2.7e-31  Score=187.35  Aligned_cols=161  Identities=46%  Similarity=0.815  Sum_probs=141.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      .||+++|.+++|||||+++|++..+...+.++.+.++....+...+ ..+.+.+||+||++.+..++..+++.+|++++|
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v   79 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLED-KTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVV   79 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECC-EEEEEEEEECCCcHHHHHHHHHHhccCCEEEEE
Confidence            4899999999999999999999988777777777777777776653 447899999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      ||++++.+|..+..|+..+......+.|+++++||+|+.+......++...+++..+++++++|++++.|++++|++|.+
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~  159 (161)
T cd01861          80 YDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAKAGHNVKELFRKIAS  159 (161)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999999887665557999999999998766667777788888888899999999999999999999987


Q ss_pred             Hc
Q 028884          194 RL  195 (202)
Q Consensus       194 ~i  195 (202)
                      .+
T Consensus       160 ~l  161 (161)
T cd01861         160 AL  161 (161)
T ss_pred             hC
Confidence            53

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

>cd04140 ARHI_like ARHI subfamily

Probab=100.00  E-value=1.4e-31  Score=189.77  Aligned_cols=159  Identities=33%  Similarity=0.511  Sum_probs=134.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|.+|+|||||++++.++.+...+.++....+ ...+.. +...+.+.+||++|.+.+..++..+++.+|++|+|
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   79 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISC-SKNICTLQITDTTGSHQFPAMQRLSISKGHAFILV   79 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEE-CCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEE
Confidence            7899999999999999999999988766666655433 223333 33458899999999999998888899999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcC---CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHG---SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~---~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      ||++++.+++.+..|+..+....   .++.|+++|+||+|+.+...+...++..++...++.++++||++|.|++++|++
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~~f~~  159 (165)
T cd04140          80 YSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHNVQELFQE  159 (165)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCCHHHHHHH
Confidence            99999999999999988776642   267999999999999776667777778888888899999999999999999999


Q ss_pred             HHHH
Q 028884          191 IAKR  194 (202)
Q Consensus       191 l~~~  194 (202)
                      |++.
T Consensus       160 l~~~  163 (165)
T cd04140         160 LLNL  163 (165)
T ss_pred             HHhc
Confidence            9864

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

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

Probab=100.00  E-value=1.3e-32  Score=182.26  Aligned_cols=163  Identities=39%  Similarity=0.697  Sum_probs=152.3

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      ..++.+|+|++|+|||+|+-+|....+...+..+++.+...+++.++ +..+.++|||+.|++.|+.+...|+++.++++
T Consensus         7 hLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~-G~~VkLqIwDtAGqErFrtitstyyrgthgv~   85 (198)
T KOG0079|consen    7 HLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDIN-GDRVKLQIWDTAGQERFRTITSTYYRGTHGVI   85 (198)
T ss_pred             HHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecC-CcEEEEEEeecccHHHHHHHHHHHccCCceEE
Confidence            46788999999999999999999999999999999999999998887 55599999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      +|||.++.+||.+..+|++.++..+ +.+|-++|+||+|.++.+.+..++++.++...++.++++|+++..|+...|.-|
T Consensus        86 vVYDVTn~ESF~Nv~rWLeei~~nc-dsv~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~mF~ci  164 (198)
T KOG0079|consen   86 VVYDVTNGESFNNVKRWLEEIRNNC-DSVPKVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAMFHCI  164 (198)
T ss_pred             EEEECcchhhhHhHHHHHHHHHhcC-ccccceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHHHHHH
Confidence            9999999999999999999999985 479999999999999999999999999999999999999999999999999888


Q ss_pred             HHHcC
Q 028884          192 AKRLP  196 (202)
Q Consensus       192 ~~~i~  196 (202)
                      .+.++
T Consensus       165 t~qvl  169 (198)
T KOG0079|consen  165 TKQVL  169 (198)
T ss_pred             HHHHH
Confidence            76654

>cd01871 Rac1_like Rac1-like subfamily

Probab=100.00  E-value=2e-31  Score=190.33  Aligned_cols=158  Identities=32%  Similarity=0.633  Sum_probs=134.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|.+|||||||+.++..+.+...+.++....+ ...+.. ++..+.+.+|||+|++.+..++..+++.+|++|+|
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv   79 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMV-DGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLIC   79 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcceeee-EEEEEE-CCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEE
Confidence            7999999999999999999999988777776664333 334444 45558999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcCC-eEEEeccC
Q 028884          114 YDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNGM-FFIETSAK  179 (202)
Q Consensus       114 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~s~~  179 (202)
                      ||++++++|..+. .|+..+... .++.|++||+||+|+.+.            ..+..+++..+++..+. .+++|||+
T Consensus        80 ~d~~~~~sf~~~~~~~~~~~~~~-~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~  158 (174)
T cd01871          80 FSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSAL  158 (174)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeccc
Confidence            9999999999985 688877765 457999999999998542            24678888899998885 89999999


Q ss_pred             CCCCHHHHHHHHHHH
Q 028884          180 TADNINQLFEEIAKR  194 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~  194 (202)
                      +|.|++++|+.++..
T Consensus       159 ~~~~i~~~f~~l~~~  173 (174)
T cd01871         159 TQKGLKTVFDEAIRA  173 (174)
T ss_pred             ccCCHHHHHHHHHHh
Confidence            999999999999864

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

>cd04126 Rab20 Rab20 subfamily

Probab=100.00  E-value=1.6e-31  Score=196.47  Aligned_cols=157  Identities=34%  Similarity=0.596  Sum_probs=133.6

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|.+++|||||+++|..+.+.. ..++.+..+.....     ..+.+.+||++|++.|..++..+++.+|++|+|
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~-----~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV   74 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW-----GPYNISIWDTAGREQFHGLGSMYCRGAAAVILT   74 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe-----eEEEEEEEeCCCcccchhhHHHHhccCCEEEEE
Confidence            589999999999999999999988754 34555544433222     237899999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC-------------------CCCCChHHHHHHHHHcC----
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE-------------------KREVPAQDGIEYAEKNG----  170 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~-------------------~~~~~~~~~~~~~~~~~----  170 (202)
                      ||++++.+|..+..|+..+.....++.|++||+||+|+.+                   .+.+..+++..++++.+    
T Consensus        75 ~Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~  154 (220)
T cd04126          75 YDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKM  154 (220)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCcccc
Confidence            9999999999998888777666566899999999999865                   46778889999998876    


Q ss_pred             ----------CeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          171 ----------MFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       171 ----------~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                                ++|+++||++|.|++++|..++..+.
T Consensus       155 ~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~  190 (220)
T cd04126         155 LDEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVL  190 (220)
T ss_pred             ccccccccccceEEEeeCCCCCCHHHHHHHHHHHHH
Confidence                      67999999999999999999998765

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=100.00  E-value=1.4e-31  Score=189.38  Aligned_cols=162  Identities=35%  Similarity=0.594  Sum_probs=136.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|++|+|||||+++|.++.+...+.++..... ...... ++..+.+.+||+||++++..++..+++.+|++++|
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v   78 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIEDSY-RKQIEI-DGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLV   78 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchhhhE-EEEEEE-CCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEE
Confidence            4899999999999999999999887666665554333 333333 34458999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      ||++++.+++.+..|+..+.+. ...+.|+++|+||+|+........++...+++..+.+++++||+++.|++++|++|+
T Consensus        79 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  158 (164)
T smart00173       79 YSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLV  158 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHHHHHH
Confidence            9999999999999998887654 345789999999999877666677778888888889999999999999999999999


Q ss_pred             HHcCC
Q 028884          193 KRLPR  197 (202)
Q Consensus       193 ~~i~~  197 (202)
                      +.+.+
T Consensus       159 ~~~~~  163 (164)
T smart00173      159 REIRK  163 (164)
T ss_pred             HHHhh
Confidence            87653

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

>cd04134 Rho3 Rho3 subfamily

Probab=100.00  E-value=2.6e-31  Score=192.32  Aligned_cols=163  Identities=31%  Similarity=0.591  Sum_probs=135.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      .||+|+|++|+|||||+++|..+.+...+.++....+. ..+.. ++..+.+.+||++|++.+..++..+++.+|++|+|
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~-~~i~~-~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv   78 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYV-HDIFV-DGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLC   78 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeeeE-EEEEE-CCEEEEEEEEECCCChhccccccccccCCCEEEEE
Confidence            38999999999999999999999887777777655543 33333 34558999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCCC------------CCChHHHHHHHHHcC-CeEEEeccC
Q 028884          114 YDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEKR------------EVPAQDGIEYAEKNG-MFFIETSAK  179 (202)
Q Consensus       114 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~~------------~~~~~~~~~~~~~~~-~~~~~~s~~  179 (202)
                      ||++++.+|+.+. .|+..+... .++.|+++|+||+|+.+..            .+..++...++...+ ++++++||+
T Consensus        79 ~dv~~~~sf~~~~~~~~~~i~~~-~~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk  157 (189)
T cd04134          79 FSVDSPDSLENVESKWLGEIREH-CPGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAK  157 (189)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCC
Confidence            9999999999885 688888765 3589999999999986543            245566777777766 689999999


Q ss_pred             CCCCHHHHHHHHHHHcCCCC
Q 028884          180 TADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i~~~~  199 (202)
                      +|.|++++|++|++.+..+.
T Consensus       158 ~~~~v~e~f~~l~~~~~~~~  177 (189)
T cd04134         158 LNRGVNEAFTEAARVALNVR  177 (189)
T ss_pred             cCCCHHHHHHHHHHHHhccc
Confidence            99999999999999887654

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.

>cd04132 Rho4_like Rho4-like subfamily

Probab=100.00  E-value=2.8e-31  Score=191.82  Aligned_cols=164  Identities=30%  Similarity=0.616  Sum_probs=138.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|.+|+|||||+++|.++.+...+.++....+. ..+...++..+.+.+|||+|++.+..++..+++.+|++|+|
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~-~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v   79 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYV-TNIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLIC   79 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeE-EEEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEE
Confidence            58999999999999999999999887776666655543 33444445668999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCC----CCCChHHHHHHHHHcCC-eEEEeccCCCCCHHHH
Q 028884          114 YDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEK----REVPAQDGIEYAEKNGM-FFIETSAKTADNINQL  187 (202)
Q Consensus       114 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~----~~~~~~~~~~~~~~~~~-~~~~~s~~~~~~i~~~  187 (202)
                      ||.+++.+|+.+. .|+..+... .++.|+++|+||.|+...    ..+...+..+++...+. +++++||++|.|+.++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~  158 (187)
T cd04132          80 YAVDNPTSLDNVEDKWFPEVNHF-CPGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEEV  158 (187)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHHH
Confidence            9999999999885 588877654 457999999999998653    24567788888988888 8999999999999999


Q ss_pred             HHHHHHHcCCCC
Q 028884          188 FEEIAKRLPRPS  199 (202)
Q Consensus       188 ~~~l~~~i~~~~  199 (202)
                      |+.+++.+....
T Consensus       159 f~~l~~~~~~~~  170 (187)
T cd04132         159 FDTAIEEALKKE  170 (187)
T ss_pred             HHHHHHHHHhhh
Confidence            999999887654

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.

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

Probab=100.00  E-value=3e-31  Score=187.60  Aligned_cols=161  Identities=32%  Similarity=0.543  Sum_probs=135.9

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .+||+++|.+|+|||||++++.++.+...+.++....+ .....+ ++..+.+.+||+||++++..++..+++.+|++++
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~il   79 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCEI-DGQWAILDILDTAGQEEFSAMREQYMRTGEGFLL   79 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceE-EEEEEE-CCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEE
Confidence            58999999999999999999999877655555554333 333333 3445789999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      |||++++.++..+..|+..+.+. ...+.|+++|+||+|+........++...+++..+++++++||++|.|++++|++|
T Consensus        80 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  159 (164)
T cd04145          80 VFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLNVDKAFHDL  159 (164)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEeeCCCCCCHHHHHHHH
Confidence            99999999999999999888765 44678999999999997766666777888888888899999999999999999999


Q ss_pred             HHHc
Q 028884          192 AKRL  195 (202)
Q Consensus       192 ~~~i  195 (202)
                      +..+
T Consensus       160 ~~~~  163 (164)
T cd04145         160 VRVI  163 (164)
T ss_pred             HHhh
Confidence            8765

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

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

Probab=100.00  E-value=3.3e-31  Score=186.86  Aligned_cols=160  Identities=33%  Similarity=0.580  Sum_probs=134.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .+||+++|.+|+|||||+++|.++.+...+.++....+ ...+.+ ++..+.+.+||++|++++..++..+++.+|++++
T Consensus         1 ~~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~   78 (162)
T cd04138           1 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   78 (162)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEE-CCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEE
Confidence            36899999999999999999999887666666655433 333334 3444788999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      |||+++..++..+..|+..+.+. ...+.|+++|+||+|+.+ ......+...+++..+++++++||++|.|++++|++|
T Consensus        79 v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  157 (162)
T cd04138          79 VFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTL  157 (162)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc-ceecHHHHHHHHHHhCCeEEEecCCCCCCHHHHHHHH
Confidence            99999999999999898888765 345789999999999865 3455667778888888999999999999999999999


Q ss_pred             HHHc
Q 028884          192 AKRL  195 (202)
Q Consensus       192 ~~~i  195 (202)
                      ++.+
T Consensus       158 ~~~~  161 (162)
T cd04138         158 VREI  161 (162)
T ss_pred             HHHh
Confidence            8765

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.

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=100.00  E-value=3.6e-31  Score=194.72  Aligned_cols=163  Identities=23%  Similarity=0.508  Sum_probs=138.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|.+|+|||||+++|..+.+...+.++....+. ..+.+ ++..+.+.+|||+|++.|..++..+++.+|++|+|
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~-~~~~~-~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illv   79 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYT-ASFEI-DKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLIC   79 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceE-EEEEE-CCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEE
Confidence            68999999999999999999999988888888776654 34444 44558999999999999999999999999999999


Q ss_pred             EeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcCC-eEEEeccC
Q 028884          114 YDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNGM-FFIETSAK  179 (202)
Q Consensus       114 ~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~s~~  179 (202)
                      ||++++++|+.+ ..|+..+... .++.|++||+||+|+...            ..+..++...++++.++ +|++|||+
T Consensus        80 fdis~~~Sf~~i~~~w~~~~~~~-~~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk  158 (222)
T cd04173          80 FDISRPETLDSVLKKWQGETQEF-CPNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSR  158 (222)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCC
Confidence            999999999998 5677766554 468999999999998542            13677889999999985 89999999


Q ss_pred             CCCC-HHHHHHHHHHHcCCCC
Q 028884          180 TADN-INQLFEEIAKRLPRPS  199 (202)
Q Consensus       180 ~~~~-i~~~~~~l~~~i~~~~  199 (202)
                      ++.+ ++++|+.++.....+.
T Consensus       159 ~~~~~V~~~F~~~~~~~~~~~  179 (222)
T cd04173         159 SSERSVRDVFHVATVASLGRG  179 (222)
T ss_pred             cCCcCHHHHHHHHHHHHHhcc
Confidence            9985 9999999998766543

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

>cd04142 RRP22 RRP22 subfamily

Probab=100.00  E-value=3e-31  Score=192.90  Aligned_cols=166  Identities=25%  Similarity=0.338  Sum_probs=133.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh--------hccccccc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA--------ALAPLYYR  105 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~~~~  105 (202)
                      +||+|+|.+|+|||||+++|.++.+...+.++.+.......+.+ ++..+.+++|||||...+.        .....+++
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~-~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~   79 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVL-SGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLR   79 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEE-CCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhc
Confidence            58999999999999999999999887777766655444444444 4555889999999965432        11334578


Q ss_pred             CccEEEEEEeCCChhHHHHHHHHHHHHHHcC---CCCCeEEEEEeCCCCCCCCCCChHHHHHHHH-HcCCeEEEeccCCC
Q 028884          106 GAAVAVVVYDITSPDSFNKAQYWVKELQKHG---SPDIVMALVGNKADLHEKREVPAQDGIEYAE-KNGMFFIETSAKTA  181 (202)
Q Consensus       106 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~s~~~~  181 (202)
                      .+|++|+|||++++++++.+..|++.+....   ..++|+++|+||+|+.+.+.+..++...++. ..+++++++||++|
T Consensus        80 ~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g  159 (198)
T cd04142          80 NSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYN  159 (198)
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCC
Confidence            8999999999999999999999998877653   4679999999999997766666666666654 56889999999999


Q ss_pred             CCHHHHHHHHHHHcCCCCC
Q 028884          182 DNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       182 ~~i~~~~~~l~~~i~~~~~  200 (202)
                      .|++++|+.++..+..+..
T Consensus       160 ~~v~~lf~~i~~~~~~~~~  178 (198)
T cd04142         160 WHILLLFKELLISATTRGR  178 (198)
T ss_pred             CCHHHHHHHHHHHhhccCC
Confidence            9999999999998877654

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.

>cd04123 Rab21 Rab21 subfamily

Probab=100.00  E-value=1.6e-30  Score=183.39  Aligned_cols=161  Identities=46%  Similarity=0.785  Sum_probs=138.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|.+|+|||||+++|.++.+.....++.........+... +..+.+.+||++|++.+..++..+++.+|++++|
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v   79 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIG-GKRIDLAIWDTAGQERYHALGPIYYRDADGAILV   79 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEEC-CEEEEEEEEECCchHHHHHhhHHHhccCCEEEEE
Confidence            589999999999999999999988766665565555555555544 4447899999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      ||+++++++..+..|+..+......++|+++|+||+|+.........+..++....+++++++|++++.|+.+++++|++
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~~~~~~l~~  159 (162)
T cd04123          80 YDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAK  159 (162)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999999988776668999999999998866666677777888888999999999999999999999988


Q ss_pred             Hc
Q 028884          194 RL  195 (202)
Q Consensus       194 ~i  195 (202)
                      .+
T Consensus       160 ~~  161 (162)
T cd04123         160 RM  161 (162)
T ss_pred             Hh
Confidence            75

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

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

Probab=99.98  E-value=2.4e-32  Score=183.13  Aligned_cols=167  Identities=43%  Similarity=0.750  Sum_probs=154.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...+||+++|..-+|||||+-+|..++|...+..+....+..+.+.+.+ ....++||||.|+++|..+-+.|+++++++
T Consensus        11 s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed-~ra~L~IWDTAGQErfHALGPIYYRgSnGa   89 (218)
T KOG0088|consen   11 SFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVED-CRADLHIWDTAGQERFHALGPIYYRGSNGA   89 (218)
T ss_pred             ceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhccccccc-ceeeeeeeeccchHhhhccCceEEeCCCce
Confidence            4579999999999999999999999999888888887777777777766 448999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      ++|||+++.+||+.++.|...++.+....+.++||+||+|+.+++.+..+++.+++...+..|+++||+++.|+.++|+.
T Consensus        90 lLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk~N~Gi~elFe~  169 (218)
T KOG0088|consen   90 LLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAKDNVGISELFES  169 (218)
T ss_pred             EEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHHHHHHHHHhhchhheecccccccCHHHHHHH
Confidence            99999999999999999999999987788889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCC
Q 028884          191 IAKRLPRP  198 (202)
Q Consensus       191 l~~~i~~~  198 (202)
                      |...+.+.
T Consensus       170 Lt~~MiE~  177 (218)
T KOG0088|consen  170 LTAKMIEH  177 (218)
T ss_pred             HHHHHHHH
Confidence            98877553

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

Probab=99.98  E-value=1.1e-30  Score=186.65  Aligned_cols=159  Identities=33%  Similarity=0.625  Sum_probs=133.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEe
Q 028884           36 LVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYD  115 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d  115 (202)
                      |+|+|.+|+|||||+++|.++.+...+.++....+ ...+.+ ++..+.+.+||++|++.+..++..+++.+|++|+|||
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d   78 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENY-SADVEV-DGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFS   78 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeee-eEEEEE-CCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEE
Confidence            68999999999999999999988776666654443 333444 3455889999999999999999999999999999999


Q ss_pred             CCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcCC-eEEEeccCCC
Q 028884          116 ITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNGM-FFIETSAKTA  181 (202)
Q Consensus       116 ~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~s~~~~  181 (202)
                      ++++.+|+.+. .|+..+... .+++|+++|+||+|+...            ..+..+++..+++..+. .++++||+++
T Consensus        79 ~~~~~s~~~~~~~~~~~i~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~  157 (174)
T smart00174       79 VDSPASFENVKEKWYPEVKHF-CPNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQ  157 (174)
T ss_pred             CCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCC
Confidence            99999999885 688888765 468999999999998652            23667778889998886 8999999999


Q ss_pred             CCHHHHHHHHHHHcCC
Q 028884          182 DNINQLFEEIAKRLPR  197 (202)
Q Consensus       182 ~~i~~~~~~l~~~i~~  197 (202)
                      .|++++|+.|++.+..
T Consensus       158 ~~v~~lf~~l~~~~~~  173 (174)
T smart00174      158 EGVREVFEEAIRAALN  173 (174)
T ss_pred             CCHHHHHHHHHHHhcC
Confidence            9999999999988764

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.98  E-value=1.3e-30  Score=195.17  Aligned_cols=164  Identities=26%  Similarity=0.437  Sum_probs=135.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      ++|+|+|.+|+|||||+++|..+.+...+.++.. +.....+.+. +..+.+.+|||+|.+.|..++..++..+|++|+|
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~-~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlV   78 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIR-GEVYQLDILDTSGNHPFPAMRRLSILTGDVFILV   78 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEEC-CEEEEEEEEECCCChhhhHHHHHHhccCCEEEEE
Confidence            4899999999999999999999888766666654 3334444443 4458999999999999988888888999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHc---------CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH-cCCeEEEeccCCCCC
Q 028884          114 YDITSPDSFNKAQYWVKELQKH---------GSPDIVMALVGNKADLHEKREVPAQDGIEYAEK-NGMFFIETSAKTADN  183 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~---------~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~s~~~~~~  183 (202)
                      ||+++.++|+.+..|++.+...         ...++|+++|+||+|+.+...+..++..+++.. ..+.++++||+++.|
T Consensus        79 fdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~g  158 (247)
T cd04143          79 FSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSN  158 (247)
T ss_pred             EeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCC
Confidence            9999999999999998888653         235799999999999976566677777776654 467899999999999


Q ss_pred             HHHHHHHHHHHcCCCC
Q 028884          184 INQLFEEIAKRLPRPS  199 (202)
Q Consensus       184 i~~~~~~l~~~i~~~~  199 (202)
                      ++++|++|++.+..+.
T Consensus       159 I~elf~~L~~~~~~p~  174 (247)
T cd04143         159 LDEMFRALFSLAKLPN  174 (247)
T ss_pred             HHHHHHHHHHHhcccc
Confidence            9999999999775543

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

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

Probab=99.98  E-value=1.2e-31  Score=178.09  Aligned_cols=167  Identities=43%  Similarity=0.803  Sum_probs=154.7

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ..+..+||+++|..|+|||.|+++|..+.+++....+++.++..+++.+.+.+ +.+++|||.|+++|++....|++.++
T Consensus         3 dykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gek-iklqiwdtagqerfrsitqsyyrsah   81 (213)
T KOG0095|consen    3 DYKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEK-IKLQIWDTAGQERFRSITQSYYRSAH   81 (213)
T ss_pred             ccceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeE-EEEEEeeccchHHHHHHHHHHhhhcc
Confidence            34678999999999999999999999999999999999999999999886555 99999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      ++|++||+++-.+|+-+.+|+..++...+..+--|+|+||.|+.+.+++......+++.....-++++||++..|++.+|
T Consensus        82 alilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~drrevp~qigeefs~~qdmyfletsakea~nve~lf  161 (213)
T KOG0095|consen   82 ALILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLADRREVPQQIGEEFSEAQDMYFLETSAKEADNVEKLF  161 (213)
T ss_pred             eEEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhhhhhhhHHHHHHHHHhhhhhhhhhcccchhhHHHHH
Confidence            99999999999999999999999999888888889999999999988999999999999888889999999999999999


Q ss_pred             HHHHHHcC
Q 028884          189 EEIAKRLP  196 (202)
Q Consensus       189 ~~l~~~i~  196 (202)
                      ..++-.+.
T Consensus       162 ~~~a~rli  169 (213)
T KOG0095|consen  162 LDLACRLI  169 (213)
T ss_pred             HHHHHHHH
Confidence            98876653

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

Probab=99.98  E-value=1.1e-30  Score=189.83  Aligned_cols=156  Identities=28%  Similarity=0.570  Sum_probs=134.5

Q ss_pred             EcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCC
Q 028884           39 LGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITS  118 (202)
Q Consensus        39 ~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~  118 (202)
                      +|..|||||||+++|..+.+...+.++.+.......+.+.+ ..+.+.+||++|.+.|..++..+++++|++|+|||+++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~-~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~   79 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNR-GPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTA   79 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECC-EEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCC
Confidence            69999999999999999888777777777777666665544 45899999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          119 PDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       119 ~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      +.+|..+..|+..+.+.. +++|+++|+||+|+... .+.. +...+++..++.+++|||++|.|+.++|++|+..+.+.
T Consensus        80 ~~S~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~~-~v~~-~~~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~  156 (200)
T smart00176       80 RVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDVKDR-KVKA-KSITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  156 (200)
T ss_pred             hHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccc-cCCH-HHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            999999999999998764 58999999999998543 3333 33467788899999999999999999999999988664

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.98  E-value=9e-31  Score=186.21  Aligned_cols=166  Identities=23%  Similarity=0.292  Sum_probs=136.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCC-CCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFD-PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      .+.+||+++|.+|+|||||+++|.++.+. ..+.++.+..+....+.+. +..+.+.+||++|.+.+..++..+++.+|+
T Consensus         2 ~~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~-~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~   80 (169)
T cd01892           2 RNVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVY-GQEKYLILREVGEDEVAILLNDAELAACDV   80 (169)
T ss_pred             CeEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEEC-CeEEEEEEEecCCcccccccchhhhhcCCE
Confidence            35799999999999999999999999887 6677777766655555554 444789999999999998888989999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC-eEEEeccCCCCCHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM-FFIETSAKTADNINQLF  188 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~s~~~~~~i~~~~  188 (202)
                      +++|||++++.+++.+..|+..+..  ..++|+++|+||+|+.+.......+..++++..++ .++++||+++.|++++|
T Consensus        81 ~llv~d~~~~~s~~~~~~~~~~~~~--~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf  158 (169)
T cd01892          81 ACLVYDSSDPKSFSYCAEVYKKYFM--LGEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSSNELF  158 (169)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHhcc--CCCCeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCccHHHHH
Confidence            9999999999999998888876643  23799999999999865544433445666777776 36999999999999999


Q ss_pred             HHHHHHcCCCC
Q 028884          189 EEIAKRLPRPS  199 (202)
Q Consensus       189 ~~l~~~i~~~~  199 (202)
                      +.|++.+..++
T Consensus       159 ~~l~~~~~~~~  169 (169)
T cd01892         159 TKLATAAQYPH  169 (169)
T ss_pred             HHHHHHhhCCC
Confidence            99999887643

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.

>cd04118 Rab24 Rab24 subfamily

Probab=99.98  E-value=2.1e-30  Score=188.21  Aligned_cols=163  Identities=40%  Similarity=0.709  Sum_probs=136.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      +||+|+|.+|+|||||+++|..+.+.. .+.++.+..+....+... +..+.+.+||++|.+++..++..+++.+|++++
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iil   79 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVG-ERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIV   79 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEEC-CEEEEEEEEECCCchhhhhhhHhhcCCCCEEEE
Confidence            589999999999999999999988764 455666665555556555 445889999999999999999989999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC----CCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK----REVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~----~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      |||++++.+++.+..|+..++.. .++.|+++|+||+|+.+.    ..+...+...++...+++++++|++++.|++++|
T Consensus        80 v~d~~~~~s~~~~~~~~~~i~~~-~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~  158 (193)
T cd04118          80 CYDLTDSSSFERAKFWVKELQNL-EEHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELF  158 (193)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhc-CCCCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHH
Confidence            99999999999999999988775 457999999999998543    2344566777788888999999999999999999


Q ss_pred             HHHHHHcCCC
Q 028884          189 EEIAKRLPRP  198 (202)
Q Consensus       189 ~~l~~~i~~~  198 (202)
                      ++|++.+.++
T Consensus       159 ~~i~~~~~~~  168 (193)
T cd04118         159 QKVAEDFVSR  168 (193)
T ss_pred             HHHHHHHHHh
Confidence            9999887543

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.98  E-value=2.9e-30  Score=183.93  Aligned_cols=165  Identities=41%  Similarity=0.748  Sum_probs=139.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|++|+|||||+++|.+..+.....++.+.+.....+.+.+ ..+.+.+||+||++.+..++..+++.+|++|+|
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v   79 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDD-KLVTLQIWDTAGQERFQSLGVAFYRGADCCVLV   79 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECC-EEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEE
Confidence            5899999999999999999999888777777766666666665554 448899999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCC----CCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcC-CeEEEeccCCCCCHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGS----PDIVMALVGNKADLHEKREVPAQDGIEYAEKNG-MFFIETSAKTADNINQLF  188 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~s~~~~~~i~~~~  188 (202)
                      ||++++.+++.+..|+..+.....    .++|+++|+||+|+..+.....++...++...+ .+++++|+++|.|+.++|
T Consensus        80 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~  159 (172)
T cd01862          80 YDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAF  159 (172)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHH
Confidence            999999999988888887655432    379999999999997655556677777777776 789999999999999999


Q ss_pred             HHHHHHcCCCC
Q 028884          189 EEIAKRLPRPS  199 (202)
Q Consensus       189 ~~l~~~i~~~~  199 (202)
                      +++.+.+.+..
T Consensus       160 ~~i~~~~~~~~  170 (172)
T cd01862         160 ETIARKALEQE  170 (172)
T ss_pred             HHHHHHHHhcc
Confidence            99998877653

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-

>cd01863 Rab18 Rab18 subfamily

Probab=99.98  E-value=3.7e-30  Score=181.55  Aligned_cols=160  Identities=47%  Similarity=0.845  Sum_probs=137.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|++|+|||||+++|.+..+.....++.+.++....+.+. +..+.+.+||+||++.+...+..+++.+|++++|
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v   79 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVD-GKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILV   79 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEEC-CEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEE
Confidence            589999999999999999999988766667777666655555543 4448899999999999998889999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      ||++++.+++.+..|+..+... ...+.|+++|+||+|+.. .....++...++...+++++++|+++|.|+.++++.+.
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~~  158 (161)
T cd01863          80 YDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKEN-REVTREEGLKFARKHNMLFIETSAKTRDGVQQAFEELV  158 (161)
T ss_pred             EECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccc-cccCHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHH
Confidence            9999999999999999988776 356899999999999873 34556778888888999999999999999999999998


Q ss_pred             HHc
Q 028884          193 KRL  195 (202)
Q Consensus       193 ~~i  195 (202)
                      +++
T Consensus       159 ~~~  161 (161)
T cd01863         159 EKI  161 (161)
T ss_pred             HhC
Confidence            764

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.97  E-value=8.4e-30  Score=181.15  Aligned_cols=164  Identities=41%  Similarity=0.813  Sum_probs=139.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ....+|+++|++|+|||||++++..+.+.....++.+.+.....+.+. +..+.+.+||++|++.+...+..+++.+|++
T Consensus         5 ~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~   83 (169)
T cd04114           5 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIK-GEKIKLQIWDTAGQERFRSITQSYYRSANAL   83 (169)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEEC-CEEEEEEEEECCCcHHHHHHHHHHhcCCCEE
Confidence            357999999999999999999999887766666666666655556554 4447899999999999998888999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      ++|||.+++.++..+..|+..+......+.|+++|+||+|+.+...+.......+.+.....++++|+++|.|++++|+.
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~  163 (169)
T cd04114          84 ILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLD  163 (169)
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHH
Confidence            99999999999999999999887766668999999999998776666666667777777788999999999999999999


Q ss_pred             HHHHc
Q 028884          191 IAKRL  195 (202)
Q Consensus       191 l~~~i  195 (202)
                      |...+
T Consensus       164 i~~~~  168 (169)
T cd04114         164 LACRL  168 (169)
T ss_pred             HHHHh
Confidence            98765

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.

>PLN03118 Rab family protein; Provisional

Probab=99.97  E-value=4.6e-30  Score=188.81  Aligned_cols=168  Identities=38%  Similarity=0.680  Sum_probs=138.8

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ..+..+||+|+|.+|+|||||+++|.++.+. ...++.+.......+... +..+.+.+||+||++.+..++..+++.+|
T Consensus        10 ~~~~~~kv~ivG~~~vGKTsli~~l~~~~~~-~~~~t~~~~~~~~~~~~~-~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d   87 (211)
T PLN03118         10 GYDLSFKILLIGDSGVGKSSLLVSFISSSVE-DLAPTIGVDFKIKQLTVG-GKRLKLTIWDTAGQERFRTLTSSYYRNAQ   87 (211)
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHHhCCCC-CcCCCceeEEEEEEEEEC-CEEEEEEEEECCCchhhHHHHHHHHhcCC
Confidence            3345799999999999999999999998763 445555555555555554 33478999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHH-HHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 028884          109 VAVVVYDITSPDSFNKAQY-WVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQ  186 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~-~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~  186 (202)
                      ++|+|||++++.+|..+.. |...+... ...+.|+++|+||+|+........++...++...++.++++||+++.|+++
T Consensus        88 ~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~SAk~~~~v~~  167 (211)
T PLN03118         88 GIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQ  167 (211)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCEEEEEeCCCCCCHHH
Confidence            9999999999999999865 65555543 234688999999999977666777788888888899999999999999999


Q ss_pred             HHHHHHHHcCCC
Q 028884          187 LFEEIAKRLPRP  198 (202)
Q Consensus       187 ~~~~l~~~i~~~  198 (202)
                      +|++|...+.+.
T Consensus       168 l~~~l~~~~~~~  179 (211)
T PLN03118        168 CFEELALKIMEV  179 (211)
T ss_pred             HHHHHHHHHHhh
Confidence            999999888654

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.97  E-value=1.4e-30  Score=184.47  Aligned_cols=160  Identities=33%  Similarity=0.496  Sum_probs=132.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh-hhhcccccccCccEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER-YAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d~~i~v  113 (202)
                      ||+|+|++|+|||||+++++.+.+...+.++..... ...+.. ++..+.+.+||+||+.. .......+++.+|++|+|
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v   78 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLY-SRQVTI-DGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLV   78 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhc-eEEEEE-CCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEE
Confidence            689999999999999999998877666555543333 333333 44558899999999885 344566788899999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcC--CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCC-CHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHG--SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD-NINQLFEE  190 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~-~i~~~~~~  190 (202)
                      ||++++.+|+.+..|+..+....  ..+.|+++|+||+|+.+...+..++...++...+++++++|++++. |++++|+.
T Consensus        79 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~  158 (165)
T cd04146          79 YSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLASELGCLFFEVSAAEDYDGVHSVFHE  158 (165)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHHHcCCEEEEeCCCCCchhHHHHHHH
Confidence            99999999999999998887753  4579999999999987766777788888898889999999999995 99999999


Q ss_pred             HHHHcC
Q 028884          191 IAKRLP  196 (202)
Q Consensus       191 l~~~i~  196 (202)
                      |++.+.
T Consensus       159 l~~~~~  164 (165)
T cd04146         159 LCREVR  164 (165)
T ss_pred             HHHHHh
Confidence            998765

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

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.97  E-value=6.6e-30  Score=185.23  Aligned_cols=159  Identities=26%  Similarity=0.442  Sum_probs=125.8

Q ss_pred             eeeEEEEcCCCCcHHHHHH-HHHhCC-----CCCCCccccce-eEEEEE-------EEecCCcEEEEEEEeCCChhhhhh
Q 028884           33 RVKLVLLGDSGVGKSCIVL-RFVRGQ-----FDPTSKVTVGA-SFLSQT-------IALQDSTTVKFEIWDTAGQERYAA   98 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~-~l~~~~-----~~~~~~~~~~~-~~~~~~-------~~~~~~~~~~~~i~D~~G~~~~~~   98 (202)
                      .+||+++|..|+|||||+. ++.++.     +...+.++.+. +.....       ....++..+.+++|||+|++.  .
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~--~   79 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHD--K   79 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChh--h
Confidence            4799999999999999996 555443     33444555531 211111       112245569999999999875  3


Q ss_pred             cccccccCccEEEEEEeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCC-------------------CCCCC
Q 028884           99 LAPLYYRGAAVAVVVYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHE-------------------KREVP  158 (202)
Q Consensus        99 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~-------------------~~~~~  158 (202)
                      +...+++++|++|+|||++++.||+.+. .|+..+.... ++.|+++|+||+|+..                   .+.+.
T Consensus        80 ~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~  158 (195)
T cd01873          80 DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFC-PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILP  158 (195)
T ss_pred             hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhccccccchhhhcccccccccccCCccC
Confidence            4566889999999999999999999996 6998887764 5789999999999853                   35678


Q ss_pred             hHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 028884          159 AQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKR  194 (202)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~  194 (202)
                      .+++.+++++.+++|++|||++|.|++++|+.+++.
T Consensus       159 ~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         159 PETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             HHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            899999999999999999999999999999999864

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.

>cd04177 RSR1 RSR1 subgroup

Probab=99.97  E-value=5.1e-30  Score=182.23  Aligned_cols=162  Identities=32%  Similarity=0.577  Sum_probs=136.9

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .++|+++|.+|+|||||+++|.++.+...+.++....+ ...+... +..+.+.+||+||++.|..+++.+++.++++++
T Consensus         1 ~~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vl   78 (168)
T cd04177           1 DYKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSY-RKQVEID-GRQCDLEILDTAGTEQFTAMRELYIKSGQGFLL   78 (168)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEEC-CEEEEEEEEeCCCcccchhhhHHHHhhCCEEEE
Confidence            37899999999999999999999888666666655433 3444443 344889999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcC-CeEEEeccCCCCCHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |||.+++.+++.+..|+..+... ...+.|+++++||.|+........++...+++..+ ++++++||+++.|++++|++
T Consensus        79 v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~  158 (168)
T cd04177          79 VYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFID  158 (168)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHH
Confidence            99999999999999999888764 34579999999999987766667777777777777 78999999999999999999


Q ss_pred             HHHHcC
Q 028884          191 IAKRLP  196 (202)
Q Consensus       191 l~~~i~  196 (202)
                      ++..+.
T Consensus       159 i~~~~~  164 (168)
T cd04177         159 LVRQII  164 (168)
T ss_pred             HHHHHh
Confidence            997653

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

>cd04135 Tc10 TC10 subfamily

Probab=99.97  E-value=7.7e-30  Score=182.18  Aligned_cols=159  Identities=29%  Similarity=0.579  Sum_probs=132.6

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|.+|+|||||+++|..+.+...+.++....+ ...+.+. +..+.+.+||++|++.+...+..+++.+|++++|
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   78 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVG-GKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLIC   78 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeee-EEEEEEC-CEEEEEEEEeCCCcccccccccccCCCCCEEEEE
Confidence            5899999999999999999999888666665554333 3344443 4447899999999999999999999999999999


Q ss_pred             EeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcCC-eEEEeccC
Q 028884          114 YDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNGM-FFIETSAK  179 (202)
Q Consensus       114 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~s~~  179 (202)
                      ||.+++.+|+.+. .|+..+... .++.|+++|+||+|+.+.            ..+..+++..+++..++ +++++||+
T Consensus        79 ~~~~~~~s~~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~  157 (174)
T cd04135          79 FSVVNPASFQNVKEEWVPELKEY-APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSAL  157 (174)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCC
Confidence            9999999999884 688877765 678999999999998543            24566778888888886 69999999


Q ss_pred             CCCCHHHHHHHHHHHc
Q 028884          180 TADNINQLFEEIAKRL  195 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i  195 (202)
                      +|.|++++|+.+++.+
T Consensus       158 ~~~gi~~~f~~~~~~~  173 (174)
T cd04135         158 TQKGLKTVFDEAILAI  173 (174)
T ss_pred             cCCCHHHHHHHHHHHh
Confidence            9999999999999876

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.97  E-value=4.9e-30  Score=180.33  Aligned_cols=154  Identities=20%  Similarity=0.364  Sum_probs=125.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|+.|+|||||+.++..+.+.+.+.++ ...+ ...+.+. +..+.+.+||++|.+.     ..+++.+|++++|
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~-~~~~-~~~i~~~-~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv   72 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPE-GGRF-KKEVLVD-GQSHLLLIRDEGGAPD-----AQFASWVDAVIFV   72 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCC-ccce-EEEEEEC-CEEEEEEEEECCCCCc-----hhHHhcCCEEEEE
Confidence            58999999999999999999998876655443 2333 3445554 4458899999999864     2356789999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCC-CCCeEEEEEeCCCCCC--CCCCChHHHHHHHHHc-CCeEEEeccCCCCCHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGS-PDIVMALVGNKADLHE--KREVPAQDGIEYAEKN-GMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~D~~~--~~~~~~~~~~~~~~~~-~~~~~~~s~~~~~~i~~~~~  189 (202)
                      ||.+++.+|+.+..|+..+..... ++.|+++|+||.|+..  .+.+..+++.++++.. ++.+++|||+++.|++++|+
T Consensus        73 ~d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~  152 (158)
T cd04103          73 FSLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQ  152 (158)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHH
Confidence            999999999999999999887643 6789999999999853  4567777888888776 58999999999999999999


Q ss_pred             HHHHHc
Q 028884          190 EIAKRL  195 (202)
Q Consensus       190 ~l~~~i  195 (202)
                      .+++.+
T Consensus       153 ~~~~~~  158 (158)
T cd04103         153 EAAQKI  158 (158)
T ss_pred             HHHhhC
Confidence            998653

The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.97  E-value=9.4e-30  Score=181.70  Aligned_cols=157  Identities=30%  Similarity=0.558  Sum_probs=131.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|++|+|||||++++..+.+...+.++.. +.....+... +..+.+.+||++|++++..++..+++.+|++|+|
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v   78 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAF-DNFSVVVLVD-GKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLC   78 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeeEEEEEC-CEEEEEEEEECCCChhhccccccccCCCcEEEEE
Confidence            5899999999999999999999888776666543 3333344444 4558899999999999999999999999999999


Q ss_pred             EeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCCC------------CCCCChHHHHHHHHHcCC-eEEEeccC
Q 028884          114 YDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHE------------KREVPAQDGIEYAEKNGM-FFIETSAK  179 (202)
Q Consensus       114 ~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~s~~  179 (202)
                      ||.+++.+|+.+ ..|+..+... .++.|+++|+||.|+.+            .+.+..+++..+++..+. .++++||+
T Consensus        79 ~d~~~~~sf~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~  157 (173)
T cd04130          79 FSVVNPSSFQNISEKWIPEIRKH-NPKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSAL  157 (173)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCC
Confidence            999999999988 4688887754 45799999999999864            345677788889988887 89999999


Q ss_pred             CCCCHHHHHHHHHH
Q 028884          180 TADNINQLFEEIAK  193 (202)
Q Consensus       180 ~~~~i~~~~~~l~~  193 (202)
                      +|.|++++|+.++-
T Consensus       158 ~~~~v~~lf~~~~~  171 (173)
T cd04130         158 TQKNLKEVFDTAIL  171 (173)
T ss_pred             CCCCHHHHHHHHHh
Confidence            99999999998864

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,

>cd00154 Rab Rab family

Probab=99.97  E-value=1.1e-29  Score=178.06  Aligned_cols=159  Identities=49%  Similarity=0.900  Sum_probs=139.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|.+++|||||++++.+..+...+.++.+.......+.... ..+.+.+||+||...+...+..+++.+|++++|
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v   79 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDG-KTVKLQIWDTAGQERFRSITPSYYRGAHGAILV   79 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECC-EEEEEEEEecCChHHHHHHHHHHhcCCCEEEEE
Confidence            5899999999999999999999988777677777766666666543 348899999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      +|+++++++..+..|+..+........|+++++||+|+........++...++...+.+++++|++++.|+.+++++|.+
T Consensus        80 ~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~~  159 (159)
T cd00154          80 YDITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQSLAE  159 (159)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHhC
Confidence            99999999999999999988876578999999999998755666778888888888999999999999999999999863

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

>cd04148 RGK RGK subfamily

Probab=99.97  E-value=1.3e-29  Score=187.34  Aligned_cols=161  Identities=30%  Similarity=0.422  Sum_probs=131.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCC-CCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhccccccc-CccEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFD-PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR-GAAVAV  111 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~-~~d~~i  111 (202)
                      +||+++|++|+|||||+++|..+.+. ..+.++...+.....+.+.+ ....+.+||++|.+.  .....+++ .+|+++
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~-~~~~l~i~Dt~G~~~--~~~~~~~~~~ad~ii   77 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDG-EESTLVVIDHWEQEM--WTEDSCMQYQGDAFV   77 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECC-EEEEEEEEeCCCcch--HHHhHHhhcCCCEEE
Confidence            48999999999999999999888775 55555554345455555544 448899999999872  22334555 899999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcC-CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHG-SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      +|||++++.+|..+..|+..+.... ..++|+++|+||+|+.+...+..++...++...+++++++||+++.|++++|++
T Consensus        78 lV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv~~l~~~  157 (221)
T cd04148          78 VVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAGLQHNVDELLEG  157 (221)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Confidence            9999999999999999998887653 357999999999999777777777778888888899999999999999999999


Q ss_pred             HHHHcCC
Q 028884          191 IAKRLPR  197 (202)
Q Consensus       191 l~~~i~~  197 (202)
                      |+..+..
T Consensus       158 l~~~~~~  164 (221)
T cd04148         158 IVRQIRL  164 (221)
T ss_pred             HHHHHHh
Confidence            9988853

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

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

Probab=99.97  E-value=5.5e-32  Score=181.52  Aligned_cols=171  Identities=32%  Similarity=0.588  Sum_probs=154.1

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecC--------CcEEEEEEEeCCChhhhhhc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQD--------STTVKFEIWDTAGQERYAAL   99 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~i~D~~G~~~~~~~   99 (202)
                      ...++.++.+.+|+.|+|||||+.++..+++......+.++++..+.+.+..        +..+.+++|||.|+++|+++
T Consensus         4 GdydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSL   83 (219)
T KOG0081|consen    4 GDYDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSL   83 (219)
T ss_pred             ccHHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHH
Confidence            3456789999999999999999999999999999999999999888877752        23588999999999999999


Q ss_pred             ccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCC-CCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEecc
Q 028884          100 APLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGS-PDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSA  178 (202)
Q Consensus       100 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~  178 (202)
                      ...+++.+=+++++||+++..||-+++.|+..++.+.. .+..+++++||+|+.+.+.+..+++.+++.++++||+++||
T Consensus        84 TTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfETSA  163 (219)
T KOG0081|consen   84 TTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFETSA  163 (219)
T ss_pred             HHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeeeecc
Confidence            99999999999999999999999999999999987632 34448999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHcCCC
Q 028884          179 KTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       179 ~~~~~i~~~~~~l~~~i~~~  198 (202)
                      -+|.|+....+.|+..++++
T Consensus       164 ~tg~Nv~kave~LldlvM~R  183 (219)
T KOG0081|consen  164 CTGTNVEKAVELLLDLVMKR  183 (219)
T ss_pred             ccCcCHHHHHHHHHHHHHHH
Confidence            99999999999998887654

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.97  E-value=6e-29  Score=175.69  Aligned_cols=162  Identities=32%  Similarity=0.567  Sum_probs=135.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|.+|+|||||++++....+...+.++....+ ...... ++..+.+.+||+||+..+...+..+++.+|++++|
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   78 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVL-DGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLV   78 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhhE-EEEEEE-CCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEE
Confidence            5899999999999999999999887665555544333 233333 44558999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      +|.+++.++..+..|+..+... ...++|+++|+||+|+.........+...++..++++++++|++++.|+.++|++|.
T Consensus        79 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  158 (164)
T cd04139          79 FSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAFYDLV  158 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHHHHHH
Confidence            9999999999998898887766 335799999999999876555666777788888889999999999999999999999


Q ss_pred             HHcCC
Q 028884          193 KRLPR  197 (202)
Q Consensus       193 ~~i~~  197 (202)
                      +.+.+
T Consensus       159 ~~~~~  163 (164)
T cd04139         159 REIRQ  163 (164)
T ss_pred             HHHHh
Confidence            88753

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

>cd00876 Ras Ras family

Probab=99.97  E-value=8.8e-29  Score=174.08  Aligned_cols=159  Identities=38%  Similarity=0.614  Sum_probs=134.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      ||+|+|++|+|||||++++++..+.....++.. +.....+.. ++..+.+++||+||+..+...+..+++.+|++++||
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~   78 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVV-DGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVY   78 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEE-CCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEE
Confidence            689999999999999999998876666555544 333333443 334488999999999999988999999999999999


Q ss_pred             eCCChhHHHHHHHHHHHHHHcCC-CCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          115 DITSPDSFNKAQYWVKELQKHGS-PDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      |.++++++..+..|+..+..... ...|+++|+||+|+........+++..++...+.+++++|++++.|++++|++|.+
T Consensus        79 d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~~  158 (160)
T cd00876          79 SITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAKDNINIDEVFKLLVR  158 (160)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccCCCCCHHHHHHHHHh
Confidence            99999999999888888776633 68999999999998876667778888888888889999999999999999999987


Q ss_pred             Hc
Q 028884          194 RL  195 (202)
Q Consensus       194 ~i  195 (202)
                      .+
T Consensus       159 ~i  160 (160)
T cd00876         159 EI  160 (160)
T ss_pred             hC
Confidence            64

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.97  E-value=2e-29  Score=181.51  Aligned_cols=165  Identities=19%  Similarity=0.295  Sum_probs=127.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      ..++|+++|.+|||||||++++..+.+... .++.+.......+...++..+.+.+||++|++.+..++..+++.+|++|
T Consensus         2 ~~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii   80 (183)
T cd04152           2 QSLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIV   80 (183)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEE
Confidence            468999999999999999999998776543 4454444444444443445589999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH------cCCeEEEeccCCCCCH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEK------NGMFFIETSAKTADNI  184 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~------~~~~~~~~s~~~~~~i  184 (202)
                      +|+|++++.++.....|+..+... ...++|++||+||+|+.+.  ....+...+...      ..++++++||+++.|+
T Consensus        81 ~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi  158 (183)
T cd04152          81 FVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNA--LSVSEVEKLLALHELSASTPWHVQPACAIIGEGL  158 (183)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCcccc--CCHHHHHHHhCccccCCCCceEEEEeecccCCCH
Confidence            999999998898888888776553 3457999999999997642  233333333321      1246889999999999


Q ss_pred             HHHHHHHHHHcCCCC
Q 028884          185 NQLFEEIAKRLPRPS  199 (202)
Q Consensus       185 ~~~~~~l~~~i~~~~  199 (202)
                      ++++++|++.+.++.
T Consensus       159 ~~l~~~l~~~l~~~~  173 (183)
T cd04152         159 QEGLEKLYEMILKRR  173 (183)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999998886543

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.

>cd04149 Arf6 Arf6 subfamily

Probab=99.97  E-value=7.4e-29  Score=176.18  Aligned_cols=154  Identities=22%  Similarity=0.373  Sum_probs=120.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.++|+++|.+|+|||||+++|..+.+.. ..++.+....  .+..   ..+.+++||++|++.++.++..+++.+|++|
T Consensus         8 ~~~kv~i~G~~~~GKTsli~~l~~~~~~~-~~~t~g~~~~--~~~~---~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii   81 (168)
T cd04149           8 KEMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNVE--TVTY---KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLI   81 (168)
T ss_pred             CccEEEEECcCCCCHHHHHHHHccCCCcc-ccCCcccceE--EEEE---CCEEEEEEECCCCHHHHHHHHHHhccCCEEE
Confidence            46899999999999999999998876643 3445544432  2222   2378999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH-----cCCeEEEeccCCCCCHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEK-----NGMFFIETSAKTADNIN  185 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~s~~~~~~i~  185 (202)
                      +|||++++.++.....|+..+... ..+++|++||+||+|+...  +..++...++..     ..+.++++||++|.|++
T Consensus        82 ~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~  159 (168)
T cd04149          82 FVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDA--MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLY  159 (168)
T ss_pred             EEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccC--CCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChH
Confidence            999999999998887777666443 3457899999999998642  344555554321     23468999999999999


Q ss_pred             HHHHHHHH
Q 028884          186 QLFEEIAK  193 (202)
Q Consensus       186 ~~~~~l~~  193 (202)
                      ++|++|.+
T Consensus       160 ~~~~~l~~  167 (168)
T cd04149         160 EGLTWLSS  167 (168)
T ss_pred             HHHHHHhc
Confidence            99999864

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.97  E-value=2e-28  Score=178.42  Aligned_cols=163  Identities=29%  Similarity=0.530  Sum_probs=130.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      ||+++|.+|+|||||+++|+.+.+...+.++.. ......+.+.+ ..+.+.+||++|+..+..++..++..+|++|+||
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~-~~~~~~~~~~~-~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~   78 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVE-EMHRKEYEVGG-VSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVY   78 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchh-hheeEEEEECC-EEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEE
Confidence            689999999999999999999887765555543 23334444443 4478999999999999888888999999999999


Q ss_pred             eCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCC-CCCChHHHHHHHH-HcCCeEEEeccCCCCCHHHHHHHH
Q 028884          115 DITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEK-REVPAQDGIEYAE-KNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~-~~~~~~~~~~~~~-~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      |++++.+++.+..|+..+... ...++|+++|+||+|+.+. ..+...+..+... ..+.+++++|+++|.|+.++|++|
T Consensus        79 d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l  158 (198)
T cd04147          79 AVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVFKEL  158 (198)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHHHHH
Confidence            999999999999998887765 3357999999999998653 4444444444333 345789999999999999999999


Q ss_pred             HHHcCCCC
Q 028884          192 AKRLPRPS  199 (202)
Q Consensus       192 ~~~i~~~~  199 (202)
                      ++.+....
T Consensus       159 ~~~~~~~~  166 (198)
T cd04147         159 LRQANLPY  166 (198)
T ss_pred             HHHhhccc
Confidence            99876543

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.

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.97  E-value=3.9e-28  Score=173.55  Aligned_cols=159  Identities=35%  Similarity=0.652  Sum_probs=129.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      .||+|+|++|||||||+++|..+.+...+.++....+. ..+.+. +..+.+.+||++|++.+...+..++..+|++++|
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v   79 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYV-ADIEVD-GKQVELALWDTAGQEDYDRLRPLSYPDTDVILMC   79 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccceE-EEEEEC-CEEEEEEEEeCCCchhhhhccccccCCCCEEEEE
Confidence            58999999999999999999998887777666654442 334443 4447899999999999998888889999999999


Q ss_pred             EeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcCC-eEEEeccC
Q 028884          114 YDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNGM-FFIETSAK  179 (202)
Q Consensus       114 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~s~~  179 (202)
                      ||++++++++.+. .|+..+... ..++|+++|+||.|+.+.            ..+...+..+++...+. .+++|||+
T Consensus        80 ~~~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~  158 (175)
T cd01870          80 FSIDSPDSLENIPEKWTPEVKHF-CPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAK  158 (175)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEeccc
Confidence            9999999998884 587777654 457999999999998543            22445667777777764 79999999


Q ss_pred             CCCCHHHHHHHHHHHc
Q 028884          180 TADNINQLFEEIAKRL  195 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i  195 (202)
                      +|.|++++|++|++.+
T Consensus       159 ~~~~v~~lf~~l~~~~  174 (175)
T cd01870         159 TKEGVREVFEMATRAA  174 (175)
T ss_pred             cCcCHHHHHHHHHHHh
Confidence            9999999999998764

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

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

Probab=99.97  E-value=1.8e-28  Score=176.13  Aligned_cols=164  Identities=34%  Similarity=0.565  Sum_probs=135.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      .||+++|.+|+|||||++++....+.....++..... ...+... +..+.+.+||+||++++...+..++..+|++++|
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~-~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v   79 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIIRYK-GQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILV   79 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhE-EEEEEEC-CEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEE
Confidence            6899999999999999999999887655555543333 3333443 3447899999999999998998999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      ||.++..+++.+..|+..+.+. ...+.|+++|+||+|+...+.....+...++...+.+++++|++++.|+.++|++|.
T Consensus        80 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~  159 (180)
T cd04137          80 YSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSARENENVEEAFELLI  159 (180)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            9999999999998888877654 456789999999999876666666667777788888999999999999999999999


Q ss_pred             HHcCCCC
Q 028884          193 KRLPRPS  199 (202)
Q Consensus       193 ~~i~~~~  199 (202)
                      +.+.+..
T Consensus       160 ~~~~~~~  166 (180)
T cd04137         160 EEIEKVE  166 (180)
T ss_pred             HHHHHhc
Confidence            8876553

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=1.7e-28  Score=176.28  Aligned_cols=160  Identities=18%  Similarity=0.347  Sum_probs=122.5

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...+||+++|..+||||||+++|..+.+. ...++.+...  ..+..   ..+.+++||+||++.++.+|..+++++|++
T Consensus        15 ~~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~--~~~~~---~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~i   88 (181)
T PLN00223         15 KKEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNV--ETVEY---KNISFTVWDVGGQDKIRPLWRHYFQNTQGL   88 (181)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeE--EEEEE---CCEEEEEEECCCCHHHHHHHHHHhccCCEE
Confidence            45689999999999999999999987764 3445555433  22332   237899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcC-----CeEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNG-----MFFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-----~~~~~~s~~~~~~i  184 (202)
                      |+|||+++++++.....++..+... ..++.|++||+||.|+....  ..++.........     +.++++||++|+|+
T Consensus        89 I~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~l~l~~~~~~~~~~~~~Sa~~g~gv  166 (181)
T PLN00223         89 IFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRHWYIQSTCATSGEGL  166 (181)
T ss_pred             EEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCCC--CHHHHHHHhCccccCCCceEEEeccCCCCCCH
Confidence            9999999999998887777665432 23578999999999986543  2333333222111     23568999999999


Q ss_pred             HHHHHHHHHHcCCC
Q 028884          185 NQLFEEIAKRLPRP  198 (202)
Q Consensus       185 ~~~~~~l~~~i~~~  198 (202)
                      .++|++|++.+..+
T Consensus       167 ~e~~~~l~~~~~~~  180 (181)
T PLN00223        167 YEGLDWLSNNIANK  180 (181)
T ss_pred             HHHHHHHHHHHhhc
Confidence            99999999987654

>cd04158 ARD1 ARD1 subfamily

Probab=99.96  E-value=2.1e-28  Score=174.09  Aligned_cols=157  Identities=21%  Similarity=0.373  Sum_probs=123.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      ||+++|.++||||||+++|.+..+.. +.++.+....  .+..   ..+.+.+||+||+..+...+..+++.+|++++|+
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~~--~~~~---~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~   74 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNVE--TVEY---KNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVV   74 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCceeEE--EEEE---CCEEEEEEECCCChhcchHHHHHhccCCEEEEEE
Confidence            68999999999999999999886543 4445443332  2322   2378999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcC------CeEEEeccCCCCCHHHH
Q 028884          115 DITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNG------MFFIETSAKTADNINQL  187 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~------~~~~~~s~~~~~~i~~~  187 (202)
                      |.+++.++..+..|+..+... ...+.|++||+||+|+.+  .+..++...++....      +.++++||++|.|+.++
T Consensus        75 D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~  152 (169)
T cd04158          75 DSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAG--ALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEG  152 (169)
T ss_pred             eCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCccc--CCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHH
Confidence            999999999998888887654 334689999999999864  344555555543221      25889999999999999


Q ss_pred             HHHHHHHcCCCC
Q 028884          188 FEEIAKRLPRPS  199 (202)
Q Consensus       188 ~~~l~~~i~~~~  199 (202)
                      |++|.+.+....
T Consensus       153 f~~l~~~~~~~~  164 (169)
T cd04158         153 LDWLSRQLVAAG  164 (169)
T ss_pred             HHHHHHHHhhcc
Confidence            999998876653

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.96  E-value=2.8e-29  Score=177.66  Aligned_cols=153  Identities=19%  Similarity=0.303  Sum_probs=122.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      +|+++|.+|+|||||+++|.++.+...+.++.+...    ..+... .+.+.+||++|++.++.++..+++.+|++|+||
T Consensus         1 ~i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~----~~i~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~   75 (164)
T cd04162           1 QILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS----VAIPTQ-DAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVV   75 (164)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCcccccccCCcce----EEEeeC-CeEEEEEECCCCcchhHHHHHHHhhCCEEEEEE
Confidence            489999999999999999999877666666655432    222223 388999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCCh----HHHHHHHHHcCCeEEEeccCC------CCCH
Q 028884          115 DITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPA----QDGIEYAEKNGMFFIETSAKT------ADNI  184 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~----~~~~~~~~~~~~~~~~~s~~~------~~~i  184 (202)
                      |.+++.++...+.|+..+.... +++|+++|+||.|+........    .++..++++.++.++++||++      ++|+
T Consensus        76 D~t~~~s~~~~~~~l~~~~~~~-~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v  154 (164)
T cd04162          76 DSADSERLPLARQELHQLLQHP-PDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAV  154 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHhCC-CCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHH
Confidence            9999999999888888876543 6899999999999866543221    123445556678889998888      9999


Q ss_pred             HHHHHHHHH
Q 028884          185 NQLFEEIAK  193 (202)
Q Consensus       185 ~~~~~~l~~  193 (202)
                      +++|+.++.
T Consensus       155 ~~~~~~~~~  163 (164)
T cd04162         155 KDLLSQLIN  163 (164)
T ss_pred             HHHHHHHhc
Confidence            999998864

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.

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

Probab=99.96  E-value=5.9e-29  Score=177.83  Aligned_cols=157  Identities=21%  Similarity=0.357  Sum_probs=120.6

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      ..+||+++|.+|+|||||+++|..+.+. .+.++.+....  .+..   ..+.+++||++|++.+..++..+++.+|++|
T Consensus        12 ~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~--~~~~---~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii   85 (175)
T smart00177       12 KEMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVE--TVTY---KNISFTVWDVGGQDKIRPLWRHYYTNTQGLI   85 (175)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceE--EEEE---CCEEEEEEECCCChhhHHHHHHHhCCCCEEE
Confidence            4699999999999999999999877663 34455554432  2222   2378999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH-----HcCCeEEEeccCCCCCHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAE-----KNGMFFIETSAKTADNIN  185 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~~~~~i~  185 (202)
                      +|||++++.+++....|+..+... ..++.|++||+||.|+.+..  ...+......     ...+.++++||++|.|+.
T Consensus        86 ~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~  163 (175)
T smart00177       86 FVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAM--KAAEITEKLGLHSIRDRNWYIQPTCATSGDGLY  163 (175)
T ss_pred             EEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCC--CHHHHHHHhCccccCCCcEEEEEeeCCCCCCHH
Confidence            999999999999988888776543 34578999999999986432  2222222221     123347789999999999


Q ss_pred             HHHHHHHHHcC
Q 028884          186 QLFEEIAKRLP  196 (202)
Q Consensus       186 ~~~~~l~~~i~  196 (202)
                      ++|++|.+.+.
T Consensus       164 e~~~~l~~~~~  174 (175)
T smart00177      164 EGLTWLSNNLK  174 (175)
T ss_pred             HHHHHHHHHhc
Confidence            99999988753

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).

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

Probab=99.96  E-value=1.1e-28  Score=162.79  Aligned_cols=166  Identities=40%  Similarity=0.751  Sum_probs=153.2

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++-+++|+-|+|||.|+++|...++...-..+++.++....+...+ .++.+++||+.|+++|+...+.|++++.+.
T Consensus         9 syifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsg-qkiklqiwdtagqerfravtrsyyrgaaga   87 (215)
T KOG0097|consen    9 SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSG-QKIKLQIWDTAGQERFRAVTRSYYRGAAGA   87 (215)
T ss_pred             hheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecC-cEEEEEEeecccHHHHHHHHHHHhccccce
Confidence            5689999999999999999999999999888888888888777777654 459999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      +.|||++.+.++..+..|+...+...+++..+++++||.|+...+++..+++.+++.+.+..++++|+++|.|+.++|-.
T Consensus        88 lmvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faeengl~fle~saktg~nvedafle  167 (215)
T KOG0097|consen   88 LMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLEASAKTGQNVEDAFLE  167 (215)
T ss_pred             eEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEEecccccCcHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999987


Q ss_pred             HHHHcCC
Q 028884          191 IAKRLPR  197 (202)
Q Consensus       191 l~~~i~~  197 (202)
                      .+..|+.
T Consensus       168 ~akkiyq  174 (215)
T KOG0097|consen  168 TAKKIYQ  174 (215)
T ss_pred             HHHHHHH
Confidence            7777654

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

Probab=99.96  E-value=8.4e-31  Score=171.02  Aligned_cols=161  Identities=40%  Similarity=0.694  Sum_probs=145.6

Q ss_pred             EEcCCCCcHHHHHHHHHhCCCC-CCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeC
Q 028884           38 LLGDSGVGKSCIVLRFVRGQFD-PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDI  116 (202)
Q Consensus        38 v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~  116 (202)
                      ++|..++|||.|+-+|..+.+- .....+.+.++..+.+... +.++.+++|||.|+++|++....|++.+|+++++||+
T Consensus         2 llgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~-~~kvklqiwdtagqerfrsvt~ayyrda~allllydi   80 (192)
T KOG0083|consen    2 LLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMD-DKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDI   80 (192)
T ss_pred             ccccCccCceEEEEEeccCceecCceeeeeeeccccceeccC-CcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeec
Confidence            6899999999999999887764 4456777888877777665 4559999999999999999999999999999999999


Q ss_pred             CChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          117 TSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       117 ~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      .+..||++.+.|+..+.......+.+++++||+|+..++.+..++...++..+++|++++|+++|.|++.+|-.|++.++
T Consensus        81 ankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~ia~~l~  160 (192)
T KOG0083|consen   81 ANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEELK  160 (192)
T ss_pred             ccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhHHHHHHHHHHH
Confidence            99999999999999999887778889999999999888899999999999999999999999999999999999999887


Q ss_pred             CCC
Q 028884          197 RPS  199 (202)
Q Consensus       197 ~~~  199 (202)
                      +.+
T Consensus       161 k~~  163 (192)
T KOG0083|consen  161 KLK  163 (192)
T ss_pred             Hhc
Confidence            653

>cd04129 Rho2 Rho2 subfamily

Probab=99.96  E-value=8.2e-28  Score=173.70  Aligned_cols=165  Identities=32%  Similarity=0.587  Sum_probs=132.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      .||+|+|++|+|||||+++|..+.+...+.++....+. ..+... +..+.+.+||++|++.+......++..+|+++++
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~~-~~~~~~-~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv   79 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENYV-TDCRVD-GKPVQLALWDTAGQEEYERLRPLSYSKAHVILIG   79 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEE-EEEEEC-CEEEEEEEEECCCChhccccchhhcCCCCEEEEE
Confidence            58999999999999999999987776655554443332 233333 3447899999999988877777778899999999


Q ss_pred             EeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCC----------CCCCChHHHHHHHHHcCC-eEEEeccCCC
Q 028884          114 YDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHE----------KREVPAQDGIEYAEKNGM-FFIETSAKTA  181 (202)
Q Consensus       114 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~----------~~~~~~~~~~~~~~~~~~-~~~~~s~~~~  181 (202)
                      ||+++.+++..+. .|+..++.. .++.|+++|+||+|+.+          ...+..++...+++..+. +++++||++|
T Consensus        80 ~~i~~~~s~~~~~~~~~~~i~~~-~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~  158 (187)
T cd04129          80 FAVDTPDSLENVRTKWIEEVRRY-CPNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTG  158 (187)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCC
Confidence            9999999999985 699888765 45799999999999854          234555677888888875 7999999999


Q ss_pred             CCHHHHHHHHHHHcCCCCCC
Q 028884          182 DNINQLFEEIAKRLPRPSPS  201 (202)
Q Consensus       182 ~~i~~~~~~l~~~i~~~~~~  201 (202)
                      .|++++|+++.+.+..-+++
T Consensus       159 ~~v~~~f~~l~~~~~~~~~~  178 (187)
T cd04129         159 EGVDDVFEAATRAALLVRKS  178 (187)
T ss_pred             CCHHHHHHHHHHHHhcccCc
Confidence            99999999999877665543

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).

>cd01893 Miro1 Miro1 subfamily

Probab=99.96  E-value=7.1e-28  Score=170.86  Aligned_cols=160  Identities=25%  Similarity=0.389  Sum_probs=121.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|.+|+|||||+++|.++.+...+..+ .... .....+. +..+.+.+||++|.+.+...+..+++.+|++++|
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~-~~~~-~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv   77 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRV-LPEI-TIPADVT-PERVPTTIVDTSSRPQDRANLAAEIRKANVICLV   77 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCc-ccce-Eeeeeec-CCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEE
Confidence            48999999999999999999998876543322 2222 2222333 3448999999999988877777778999999999


Q ss_pred             EeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC--ChHHHHHHHHHc-C-CeEEEeccCCCCCHHHHH
Q 028884          114 YDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEKREV--PAQDGIEYAEKN-G-MFFIETSAKTADNINQLF  188 (202)
Q Consensus       114 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~~~-~-~~~~~~s~~~~~~i~~~~  188 (202)
                      ||++++.+++.+. .|+..++... .+.|+++|+||+|+.+....  ..++...++... . ..++++||+++.|++++|
T Consensus        78 ~d~~~~~s~~~~~~~~~~~i~~~~-~~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf  156 (166)
T cd01893          78 YSVDRPSTLERIRTKWLPLIRRLG-VKVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVF  156 (166)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHH
Confidence            9999999999974 6888787664 48999999999998665432  122233333333 2 379999999999999999


Q ss_pred             HHHHHHcCC
Q 028884          189 EEIAKRLPR  197 (202)
Q Consensus       189 ~~l~~~i~~  197 (202)
                      +.+.+.+.+
T Consensus       157 ~~~~~~~~~  165 (166)
T cd01893         157 YYAQKAVLH  165 (166)
T ss_pred             HHHHHHhcC
Confidence            999988765

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.

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

Probab=99.96  E-value=1.6e-28  Score=177.21  Aligned_cols=164  Identities=35%  Similarity=0.584  Sum_probs=147.6

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      ...+|+++|.+|+|||+|..+|..+.+...+.++++..+ .+.+.+. +....+.|+||+|++++..+...++.++|+++
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptied~y-~k~~~v~-~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~   79 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIEDSY-RKELTVD-GEVCMLEILDTAGQEEFSAMRDLYIRNGDGFL   79 (196)
T ss_pred             CceEEEEECCCCCCcchheeeecccccccccCCCccccc-eEEEEEC-CEEEEEEEEcCCCcccChHHHHHhhccCcEEE
Confidence            468999999999999999999999999999998888444 4445555 55589999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      +||++++..||+.+..+++.+.+. ....+|+++|+||+|+...+.+..++...++..++++++++||+...+++++|..
T Consensus        80 lVysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~~F~~  159 (196)
T KOG0395|consen   80 LVYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDEVFYE  159 (196)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHHHHHH
Confidence            999999999999999999998554 4456899999999999988999999999999999999999999999999999999


Q ss_pred             HHHHcCC
Q 028884          191 IAKRLPR  197 (202)
Q Consensus       191 l~~~i~~  197 (202)
                      |+..+..
T Consensus       160 L~r~~~~  166 (196)
T KOG0395|consen  160 LVREIRL  166 (196)
T ss_pred             HHHHHHh
Confidence            9998776

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.96  E-value=8.7e-29  Score=174.35  Aligned_cols=152  Identities=19%  Similarity=0.370  Sum_probs=115.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|.++||||||++++..+.+. .+.++.+....  .+..   ..+.+.+||++|++++..++..+++.+|++|+|
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~~--~~~~---~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v   74 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEY---KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFV   74 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcceE--EEEE---CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEE
Confidence            48999999999999999999877765 34555544332  2222   237899999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH-----HcCCeEEEeccCCCCCHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAE-----KNGMFFIETSAKTADNINQL  187 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~~~~~i~~~  187 (202)
                      ||++++.++....+|+..+... ...+.|++|++||+|+.+..  ...+......     ...+.++++||++|.|++++
T Consensus        75 ~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~  152 (159)
T cd04150          75 VDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNAM--SAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEG  152 (159)
T ss_pred             EeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCCC--CHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHH
Confidence            9999999999888877766432 33468999999999985432  2222222211     12345789999999999999


Q ss_pred             HHHHHH
Q 028884          188 FEEIAK  193 (202)
Q Consensus       188 ~~~l~~  193 (202)
                      |++|.+
T Consensus       153 ~~~l~~  158 (159)
T cd04150         153 LDWLSN  158 (159)
T ss_pred             HHHHhc
Confidence            999864

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.96  E-value=1.4e-27  Score=173.40  Aligned_cols=162  Identities=24%  Similarity=0.390  Sum_probs=132.0

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEec----CCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ----DSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      +||+++|..++|||||+++|.++.+...+.++.+.....+.+.+.    ++..+.+.+||++|++.|..++..+++.+|+
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~   80 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNG   80 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCE
Confidence            589999999999999999999999887777787766666666554    2456899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHc-------------------CCCCCeEEEEEeCCCCCCCCCCChH----HHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKH-------------------GSPDIVMALVGNKADLHEKREVPAQ----DGIEYA  166 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~-------------------~~~~~p~ivv~nK~D~~~~~~~~~~----~~~~~~  166 (202)
                      +|+|||++++.|++.+..|+..+...                   ...+.|++||+||.|+.+++.+...    ....++
T Consensus        81 iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~~~~~~~~~~~~~ia  160 (202)
T cd04102          81 IILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKESSGNLVLTARGFVA  160 (202)
T ss_pred             EEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcccchHHHhhHhhhHH
Confidence            99999999999999999999998653                   2357899999999998765444333    244567


Q ss_pred             HHcCCeEEEeccCCCC----------CHHHHHHHHHHHc
Q 028884          167 EKNGMFFIETSAKTAD----------NINQLFEEIAKRL  195 (202)
Q Consensus       167 ~~~~~~~~~~s~~~~~----------~i~~~~~~l~~~i  195 (202)
                      .+.+++.++.++.++.          .+..+|+.++++-
T Consensus       161 ~~~~~~~i~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~  199 (202)
T cd04102         161 EQGNAEEINLNCTNGRLLAAGSSDAVKLSRFFDKVIEKR  199 (202)
T ss_pred             HhcCCceEEEecCCcccccCCCccHHHHHHHHHHHHHhh
Confidence            8899998998888664          3566777766653

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.

>cd04154 Arl2 Arl2 subfamily

Probab=99.96  E-value=7.4e-28  Score=171.89  Aligned_cols=155  Identities=21%  Similarity=0.293  Sum_probs=120.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...++|+++|++|+|||||+++|.+..+. ...++.+.  ....+.+.   .+.+.+||+||++.++.++..+++.+|++
T Consensus        12 ~~~~kv~ivG~~~~GKTsL~~~l~~~~~~-~~~~t~g~--~~~~~~~~---~~~l~l~D~~G~~~~~~~~~~~~~~~d~~   85 (173)
T cd04154          12 EREMRILILGLDNAGKTTILKKLLGEDID-TISPTLGF--QIKTLEYE---GYKLNIWDVGGQKTLRPYWRNYFESTDAL   85 (173)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCC-CcCCcccc--ceEEEEEC---CEEEEEEECCCCHHHHHHHHHHhCCCCEE
Confidence            45689999999999999999999987543 33444432  22333333   27899999999999988999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH-----HcCCeEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAE-----KNGMFFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~~~~~i  184 (202)
                      ++|+|.+++.++.....|+..+... ...+.|+++|+||+|+.+..  ..++...+..     ...++++++||++|.|+
T Consensus        86 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi  163 (173)
T cd04154          86 IWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGAL--SEEEIREALELDKISSHHWRIQPCSAVTGEGL  163 (173)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCC--CHHHHHHHhCccccCCCceEEEeccCCCCcCH
Confidence            9999999999999888888776543 34689999999999986533  3344444432     23567999999999999


Q ss_pred             HHHHHHHHH
Q 028884          185 NQLFEEIAK  193 (202)
Q Consensus       185 ~~~~~~l~~  193 (202)
                      +++|++|++
T Consensus       164 ~~l~~~l~~  172 (173)
T cd04154         164 LQGIDWLVD  172 (173)
T ss_pred             HHHHHHHhc
Confidence            999999874

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.

>cd00157 Rho Rho (Ras homology) family

Probab=99.96  E-value=1.5e-27  Score=169.79  Aligned_cols=157  Identities=33%  Similarity=0.693  Sum_probs=127.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+++|.+|+|||||+++|.++.+...+.++..... ...... .+..+.+++||+||++.+......+++.+|++++|
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v   78 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVFDNY-SATVTV-DGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLIC   78 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeee-EEEEEE-CCEEEEEEEEeCCCcccccccchhhcCCCCEEEEE
Confidence            6899999999999999999999887555555544333 333333 34458899999999998888888888999999999


Q ss_pred             EeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCCCCC-----------CCChHHHHHHHHHcCC-eEEEeccCC
Q 028884          114 YDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHEKR-----------EVPAQDGIEYAEKNGM-FFIETSAKT  180 (202)
Q Consensus       114 ~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~-----------~~~~~~~~~~~~~~~~-~~~~~s~~~  180 (202)
                      ||.+++.++... ..|+..+... ..+.|+++|+||+|+.+..           .+..++...++...++ +++++|+++
T Consensus        79 ~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~  157 (171)
T cd00157          79 FSVDSPSSFENVKTKWIPEIRHY-CPNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALT  157 (171)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCC
Confidence            999999988776 5677777665 3489999999999986554           2346677778888877 899999999


Q ss_pred             CCCHHHHHHHHHH
Q 028884          181 ADNINQLFEEIAK  193 (202)
Q Consensus       181 ~~~i~~~~~~l~~  193 (202)
                      +.|+.++|++|++
T Consensus       158 ~~gi~~l~~~i~~  170 (171)
T cd00157         158 QEGVKEVFEEAIR  170 (171)
T ss_pred             CCCHHHHHHHHhh
Confidence            9999999999875

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.96  E-value=7.5e-28  Score=173.08  Aligned_cols=160  Identities=19%  Similarity=0.352  Sum_probs=120.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...+||+++|++++|||||++++..+.+.. +.++.+....  .+..   ..+.+++||++|++.++.++..+++.+|++
T Consensus        15 ~~~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~--~~~~---~~~~~~l~D~~G~~~~~~~~~~~~~~ad~i   88 (182)
T PTZ00133         15 KKEVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVE--TVEY---KNLKFTMWDVGGQDKLRPLWRHYYQNTNGL   88 (182)
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceE--EEEE---CCEEEEEEECCCCHhHHHHHHHHhcCCCEE
Confidence            346899999999999999999998777643 4455544432  2322   237899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH-----HcCCeEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAE-----KNGMFFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~~~~~i  184 (202)
                      |+|+|++++.++.....++..+... ...+.|++||+||.|+.+..  ...+......     ...+.++++||++|.|+
T Consensus        89 I~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv  166 (182)
T PTZ00133         89 IFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAM--STTEVTEKLGLHSVRQRNWYIQGCCATTAQGL  166 (182)
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCCC--CHHHHHHHhCCCcccCCcEEEEeeeCCCCCCH
Confidence            9999999999998887777665432 33578999999999985432  2222222211     11235678999999999


Q ss_pred             HHHHHHHHHHcCCC
Q 028884          185 NQLFEEIAKRLPRP  198 (202)
Q Consensus       185 ~~~~~~l~~~i~~~  198 (202)
                      +++|++|.+.+.+.
T Consensus       167 ~e~~~~l~~~i~~~  180 (182)
T PTZ00133        167 YEGLDWLSANIKKS  180 (182)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999877653

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.96  E-value=3.7e-27  Score=173.88  Aligned_cols=166  Identities=30%  Similarity=0.549  Sum_probs=138.9

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      +....+||+++|++|||||||++++..+.+...+.++.+.+.....+...+ ..+.+.+||++|++.+..++..++..++
T Consensus         5 ~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~~i~i~~~Dt~g~~~~~~~~~~~~~~~~   83 (215)
T PTZ00132          5 DEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNC-GPICFNVWDTAGQEKFGGLRDGYYIKGQ   83 (215)
T ss_pred             cCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECC-eEEEEEEEECCCchhhhhhhHHHhccCC
Confidence            345579999999999999999999998888777788887777665555444 4489999999999999888888999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      ++++|||+++..++..+..|+..+.... .+.|+++++||+|+.+. ... .+...++...++.++++|++++.|++++|
T Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~i~lv~nK~Dl~~~-~~~-~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f  160 (215)
T PTZ00132         84 CAIIMFDVTSRITYKNVPNWHRDIVRVC-ENIPIVLVGNKVDVKDR-QVK-ARQITFHRKKNLQYYDISAKSNYNFEKPF  160 (215)
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccCccc-cCC-HHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            9999999999999999999999887663 57899999999997543 222 33345677788899999999999999999


Q ss_pred             HHHHHHcCCC
Q 028884          189 EEIAKRLPRP  198 (202)
Q Consensus       189 ~~l~~~i~~~  198 (202)
                      .+|+..+...
T Consensus       161 ~~ia~~l~~~  170 (215)
T PTZ00132        161 LWLARRLTND  170 (215)
T ss_pred             HHHHHHHhhc
Confidence            9999887654

>cd04157 Arl6 Arl6 subfamily

Probab=99.95  E-value=2.6e-27  Score=167.07  Aligned_cols=152  Identities=17%  Similarity=0.245  Sum_probs=114.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCC-CCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQF-DPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +|+++|.+|+|||||+++|.+... ...+.++.+...  ..+..   ..+.+.+||+||.+.+..++..+++.+|++|+|
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~--~~~~~---~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v   75 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNV--ESFEK---GNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFV   75 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccce--EEEEE---CCEEEEEEECCCCHhhHHHHHHHHccCCEEEEE
Confidence            589999999999999999998753 334445544332  22222   237899999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHc---CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH-----HcCCeEEEeccCCCCCHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKH---GSPDIVMALVGNKADLHEKREVPAQDGIEYAE-----KNGMFFIETSAKTADNIN  185 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~---~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~~~~~i~  185 (202)
                      +|++++.++.....|+..+...   ...++|+++|+||+|+.+...  ..+......     ....+++++||++|.|++
T Consensus        76 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~--~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~  153 (162)
T cd04157          76 IDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDALT--AVKITQLLGLENIKDKPWHIFASNALTGEGLD  153 (162)
T ss_pred             EeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCCC--HHHHHHHhCCccccCceEEEEEeeCCCCCchH
Confidence            9999999998888888776543   235799999999999865322  222221111     123458999999999999


Q ss_pred             HHHHHHHH
Q 028884          186 QLFEEIAK  193 (202)
Q Consensus       186 ~~~~~l~~  193 (202)
                      ++|++|.+
T Consensus       154 ~~~~~l~~  161 (162)
T cd04157         154 EGVQWLQA  161 (162)
T ss_pred             HHHHHHhc
Confidence            99999875

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

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

Probab=99.95  E-value=7.6e-28  Score=170.29  Aligned_cols=167  Identities=34%  Similarity=0.676  Sum_probs=147.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...+|++|+|+.++|||+|+-.+..+.++..+.|+....+ ...+.+.++..+.+.+|||.|+++|..++...++.+|++
T Consensus         2 ~~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVFdny-s~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvf   80 (198)
T KOG0393|consen    2 SRRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVFDNY-SANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVF   80 (198)
T ss_pred             ceeeEEEEECCCCcCceEEEEEeccCcCcccccCeEEccc-eEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEE
Confidence            3579999999999999999999999999999998888555 455566556779999999999999999888899999999


Q ss_pred             EEEEeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcC-CeEEEe
Q 028884          111 VVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNG-MFFIET  176 (202)
Q Consensus       111 i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~  176 (202)
                      ++||++.++.||+++ .+|+..++.++ ++.|+|+|++|.|+...            ..+..++...++++.+ ..|++|
T Consensus        81 l~cfsv~~p~S~~nv~~kW~pEi~~~c-p~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~Ec  159 (198)
T KOG0393|consen   81 LLCFSVVSPESFENVKSKWIPEIKHHC-PNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLEC  159 (198)
T ss_pred             EEEEEcCChhhHHHHHhhhhHHHHhhC-CCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeee
Confidence            999999999999987 88999999885 89999999999998632            3577888999999998 569999


Q ss_pred             ccCCCCCHHHHHHHHHHHcCCCC
Q 028884          177 SAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       177 s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      ||++..|++++|+..+.....+.
T Consensus       160 Sa~tq~~v~~vF~~a~~~~l~~~  182 (198)
T KOG0393|consen  160 SALTQKGVKEVFDEAIRAALRPP  182 (198)
T ss_pred             hhhhhCCcHHHHHHHHHHHhccc
Confidence            99999999999999998886653

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.95  E-value=3.2e-27  Score=167.62  Aligned_cols=153  Identities=19%  Similarity=0.190  Sum_probs=117.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      +|+++|.+|+|||||+++|.+. +...+.++.+..  ...+...  . +.+.+||+||+..++.++..+++.+|++|+||
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~--~~~~~~~--~-~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~   74 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFT--PTKLRLD--K-YEVCIFDLGGGANFRGIWVNYYAEAHGLVFVV   74 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccce--EEEEEEC--C-EEEEEEECCCcHHHHHHHHHHHcCCCEEEEEE
Confidence            4899999999999999999976 445555555543  2333332  2 78999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHH----HHHHHHHc--CCeEEEeccCCC------
Q 028884          115 DITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQD----GIEYAEKN--GMFFIETSAKTA------  181 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~----~~~~~~~~--~~~~~~~s~~~~------  181 (202)
                      |++++.++..+..|+..+... ...++|+++|+||.|+..........    ...++.+.  .+.+++|||++|      
T Consensus        75 D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~  154 (167)
T cd04161          75 DSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALLGADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKID  154 (167)
T ss_pred             ECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCCHHHHHHhcCcccccCCCCceEEEEEeEceeCCCCccc
Confidence            999999999999998888654 23578999999999986543211111    11222222  346788999998      


Q ss_pred             CCHHHHHHHHHH
Q 028884          182 DNINQLFEEIAK  193 (202)
Q Consensus       182 ~~i~~~~~~l~~  193 (202)
                      .|+.+.|+||.+
T Consensus       155 ~g~~~~~~wl~~  166 (167)
T cd04161         155 PSIVEGLRWLLA  166 (167)
T ss_pred             cCHHHHHHHHhc
Confidence            899999999975

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.95  E-value=1.2e-26  Score=165.87  Aligned_cols=154  Identities=21%  Similarity=0.357  Sum_probs=117.8

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      ..++|+++|.+|+|||||++++..+.+.. ..++.+...  ..+...   .+.+.+||+||++.+...+..+++.+|+++
T Consensus        14 ~~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~--~~~~~~---~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi   87 (174)
T cd04153          14 KEYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNV--EEIVYK---NIRFLMWDIGGQESLRSSWNTYYTNTDAVI   87 (174)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccce--EEEEEC---CeEEEEEECCCCHHHHHHHHHHhhcCCEEE
Confidence            35899999999999999999999877654 344444433  223322   278999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHH-HH----HHcCCeEEEeccCCCCCHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIE-YA----EKNGMFFIETSAKTADNIN  185 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~-~~----~~~~~~~~~~s~~~~~~i~  185 (202)
                      +|+|.+++.++.....++..+... ...+.|+++++||+|+....  ..++... +.    +...++++++||++|.|++
T Consensus        88 ~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~~--~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~  165 (174)
T cd04153          88 LVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGAM--TPAEISESLGLTSIRDHTWHIQGCCALTGEGLP  165 (174)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCCC--CHHHHHHHhCcccccCCceEEEecccCCCCCHH
Confidence            999999998888777766665443 33579999999999986522  2222222 21    2344578999999999999


Q ss_pred             HHHHHHHH
Q 028884          186 QLFEEIAK  193 (202)
Q Consensus       186 ~~~~~l~~  193 (202)
                      ++|++|.+
T Consensus       166 e~~~~l~~  173 (174)
T cd04153         166 EGLDWIAS  173 (174)
T ss_pred             HHHHHHhc
Confidence            99999975

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.

>cd00879 Sar1 Sar1 subfamily

Probab=99.95  E-value=2e-26  Score=166.84  Aligned_cols=157  Identities=18%  Similarity=0.289  Sum_probs=122.2

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+..+|+++|++|+|||||++++.++.+. .+.++.....  ..+.+.+   +.+.+||+||+..+...+..+++.+|++
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~~--~~i~~~~---~~~~l~D~~G~~~~~~~~~~~~~~ad~i   90 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPTS--EELTIGN---IKFKTFDLGGHEQARRLWKDYFPEVDGI   90 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcce--EEEEECC---EEEEEEECCCCHHHHHHHHHHhccCCEE
Confidence            34789999999999999999999987763 3334433322  2333332   6899999999999988889999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH----------------cCCeE
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEK----------------NGMFF  173 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~----------------~~~~~  173 (202)
                      ++|+|.++..++.....|+..+... ...+.|+++++||+|+.+  .+..++.......                ..+++
T Consensus        91 ilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (190)
T cd00879          91 VFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPG--AVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEV  168 (190)
T ss_pred             EEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCC--CcCHHHHHHHhCcccccccccccccccCceeEEE
Confidence            9999999998888887787776553 345799999999999854  3445555555432                22458


Q ss_pred             EEeccCCCCCHHHHHHHHHHHc
Q 028884          174 IETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       174 ~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      ++|||+++.|+.++|++|.+.+
T Consensus       169 ~~~Sa~~~~gv~e~~~~l~~~~  190 (190)
T cd00879         169 FMCSVVKRQGYGEAFRWLSQYL  190 (190)
T ss_pred             EEeEecCCCChHHHHHHHHhhC
Confidence            9999999999999999998764

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=99.95  E-value=1.7e-26  Score=163.86  Aligned_cols=152  Identities=19%  Similarity=0.325  Sum_probs=115.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCC------CCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFD------PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      +|+|+|++|+|||||+++|.+....      ....++.....  ..+.+.   ...+.+||+||++.+..++..+++.+|
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~--~~~~~~---~~~~~l~Dt~G~~~~~~~~~~~~~~~~   75 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNI--GTIEVG---NARLKFWDLGGQESLRSLWDKYYAECH   75 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccce--EEEEEC---CEEEEEEECCCChhhHHHHHHHhCCCC
Confidence            6899999999999999999864321      12223333333  223332   278999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH-------cCCeEEEeccCC
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEK-------NGMFFIETSAKT  180 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-------~~~~~~~~s~~~  180 (202)
                      ++++|+|++++.++.....|+..+.+. ...+.|+++++||+|+...  ....+...+...       ...+++++||++
T Consensus        76 ~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  153 (167)
T cd04160          76 AIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDA--LSVEEIKEVFQDKAEEIGRRDCLVLPVSALE  153 (167)
T ss_pred             EEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccC--CCHHHHHHHhccccccccCCceEEEEeeCCC
Confidence            999999999998888888887776553 3467999999999997553  223333333322       245799999999


Q ss_pred             CCCHHHHHHHHHH
Q 028884          181 ADNINQLFEEIAK  193 (202)
Q Consensus       181 ~~~i~~~~~~l~~  193 (202)
                      |.|+++++++|++
T Consensus       154 g~gv~e~~~~l~~  166 (167)
T cd04160         154 GTGVREGIEWLVE  166 (167)
T ss_pred             CcCHHHHHHHHhc
Confidence            9999999999975

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.95  E-value=1.2e-26  Score=163.41  Aligned_cols=152  Identities=22%  Similarity=0.364  Sum_probs=115.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      +|+++|++|+|||||+++|.++.+... .++.+...  ..+..  +..+.+.+||++|+..+...+..++..+|++++|+
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~~-~~t~~~~~--~~~~~--~~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~   75 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVTT-IPTVGFNV--EMLQL--EKHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVV   75 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCcccc-cCccCcce--EEEEe--CCceEEEEEECCCCHhHHHHHHHHhccCCEEEEEE
Confidence            589999999999999999999876433 34433322  22332  22378999999999999888888999999999999


Q ss_pred             eCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHH------HHHcCCeEEEeccCCCCCHHHH
Q 028884          115 DITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEY------AEKNGMFFIETSAKTADNINQL  187 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~------~~~~~~~~~~~s~~~~~~i~~~  187 (202)
                      |.+++.++.....|+..+.+. ...+.|+++|+||+|+....  ...+....      +...+++++++||++|.|++++
T Consensus        76 D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~  153 (160)
T cd04156          76 DSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGAL--TAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEA  153 (160)
T ss_pred             ECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccCc--CHHHHHHHcCCcccCCCCcEEEEecccccCCChHHH
Confidence            999999888888887776543 23579999999999985422  12222211      1123456899999999999999


Q ss_pred             HHHHHH
Q 028884          188 FEEIAK  193 (202)
Q Consensus       188 ~~~l~~  193 (202)
                      |++|.+
T Consensus       154 ~~~i~~  159 (160)
T cd04156         154 FRKLAS  159 (160)
T ss_pred             HHHHhc
Confidence            999864

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

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

Probab=99.95  E-value=1.3e-26  Score=163.04  Aligned_cols=151  Identities=23%  Similarity=0.383  Sum_probs=117.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      ||+++|.+|||||||++++.+... ....++.+...  ..+.+.   .+.+.+||+||+..+...+..+++.+|++++||
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~~--~~~~~~---~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~   74 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VTTIPTIGFNV--ETVEYK---NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVV   74 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcce--EEEEEC---CEEEEEEECCCChhhHHHHHHHhccCCEEEEEE
Confidence            689999999999999999998873 23333333332  233332   278999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH-----HcCCeEEEeccCCCCCHHHHH
Q 028884          115 DITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAE-----KNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      |++++.++.....|+..+... ...+.|+++|+||+|+....  ..++......     ...++++++|+++|.|+.++|
T Consensus        75 D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~  152 (158)
T cd00878          75 DSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGL  152 (158)
T ss_pred             ECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc--CHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHH
Confidence            999999999888888776553 34689999999999987543  2222222222     235679999999999999999


Q ss_pred             HHHHH
Q 028884          189 EEIAK  193 (202)
Q Consensus       189 ~~l~~  193 (202)
                      ++|..
T Consensus       153 ~~l~~  157 (158)
T cd00878         153 DWLLQ  157 (158)
T ss_pred             HHHhh
Confidence            99875

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

>PLN00023 GTP-binding protein; Provisional

Probab=99.95  E-value=5.7e-26  Score=172.81  Aligned_cols=145  Identities=27%  Similarity=0.471  Sum_probs=122.6

Q ss_pred             CCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecC------------CcEEEEEEEeCCChh
Q 028884           27 SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQD------------STTVKFEIWDTAGQE   94 (202)
Q Consensus        27 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~i~D~~G~~   94 (202)
                      ..+....+||+|+|..|||||||+++|.++.+...+.++++.+...+.+.+.+            +..+.++|||++|++
T Consensus        15 ~~~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqE   94 (334)
T PLN00023         15 GGPPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHE   94 (334)
T ss_pred             cCCCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCCh
Confidence            55566789999999999999999999999988777788887777666666542            245889999999999


Q ss_pred             hhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCC------------CCCeEEEEEeCCCCCCCC---C---
Q 028884           95 RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGS------------PDIVMALVGNKADLHEKR---E---  156 (202)
Q Consensus        95 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~------------~~~p~ivv~nK~D~~~~~---~---  156 (202)
                      .|+.++..+++.+|++|+|||+++..+++.+..|++.+.....            .++|++||+||+|+.+..   .   
T Consensus        95 rfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~  174 (334)
T PLN00023         95 RYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSG  174 (334)
T ss_pred             hhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECcccccccccccccc
Confidence            9999999999999999999999999999999999999987531            358999999999986542   1   


Q ss_pred             CChHHHHHHHHHcCC
Q 028884          157 VPAQDGIEYAEKNGM  171 (202)
Q Consensus       157 ~~~~~~~~~~~~~~~  171 (202)
                      +..+++++++.+.++
T Consensus       175 ~~~e~a~~~A~~~g~  189 (334)
T PLN00023        175 NLVDAARQWVEKQGL  189 (334)
T ss_pred             ccHHHHHHHHHHcCC
Confidence            357889999998774

>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=99.95  E-value=6.2e-26  Score=162.07  Aligned_cols=157  Identities=26%  Similarity=0.448  Sum_probs=122.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++.++|+++|..|+|||||++++..+.... ..|+.+..  ...+.+.+   +.+.+||.+|+..++..|+.+++.+|++
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l~~~~~~~-~~pT~g~~--~~~i~~~~---~~~~~~d~gG~~~~~~~w~~y~~~~~~i   85 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRLKNGEISE-TIPTIGFN--IEEIKYKG---YSLTIWDLGGQESFRPLWKSYFQNADGI   85 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHHHSSSEEE-EEEESSEE--EEEEEETT---EEEEEEEESSSGGGGGGGGGGHTTESEE
T ss_pred             CcEEEEEEECCCccchHHHHHHhhhccccc-cCcccccc--cceeeeCc---EEEEEEeccccccccccceeecccccee
Confidence            678999999999999999999999765432 34444433  34444433   7899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH------HcCCeEEEeccCCCCC
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAE------KNGMFFIETSAKTADN  183 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~------~~~~~~~~~s~~~~~~  183 (202)
                      |||+|.++...+.+..+.+..+... ...++|++|++||+|+...  ...++......      ...+.++.||+.+|.|
T Consensus        86 IfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~--~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~G  163 (175)
T PF00025_consen   86 IFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDA--MSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEG  163 (175)
T ss_dssp             EEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTS--STHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBT
T ss_pred             EEEEecccceeecccccchhhhcchhhcccceEEEEeccccccCc--chhhHHHhhhhhhhcccCCceEEEeeeccCCcC
Confidence            9999999998888887777666543 4468999999999997653  33344443322      2345589999999999


Q ss_pred             HHHHHHHHHHHc
Q 028884          184 INQLFEEIAKRL  195 (202)
Q Consensus       184 i~~~~~~l~~~i  195 (202)
                      +.+.++||.+.+
T Consensus       164 v~e~l~WL~~~~  175 (175)
T PF00025_consen  164 VDEGLEWLIEQI  175 (175)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC
Confidence            999999999864

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 ....

>cd04151 Arl1 Arl1 subfamily

Probab=99.95  E-value=7.1e-26  Score=159.32  Aligned_cols=151  Identities=21%  Similarity=0.338  Sum_probs=111.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      ||+++|.+++|||||++++..+.+.. ..++.+....  .+..   ..+.+++||+||++.+..++..+++.+|++|+|+
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~~~---~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~   74 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVT-TIPTIGFNVE--TVTY---KNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVV   74 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcC-cCCccCcCeE--EEEE---CCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEE
Confidence            68999999999999999998776543 2334333322  2222   2378999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHHHHHH-HHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH-----HcCCeEEEeccCCCCCHHHHH
Q 028884          115 DITSPDSFNKAQYWVKEL-QKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAE-----KNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~~i-~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      |++++.++....+++..+ ......++|+++|+||+|+.+..  ...+......     ..+.+++++||+++.|++++|
T Consensus        75 d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  152 (158)
T cd04151          75 DSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGAL--SEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGM  152 (158)
T ss_pred             ECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCC--CHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHH
Confidence            999988887765655544 33334579999999999986532  1222221111     123469999999999999999


Q ss_pred             HHHHH
Q 028884          189 EEIAK  193 (202)
Q Consensus       189 ~~l~~  193 (202)
                      ++|++
T Consensus       153 ~~l~~  157 (158)
T cd04151         153 DWLVN  157 (158)
T ss_pred             HHHhc
Confidence            99975

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.

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

Probab=99.94  E-value=1.2e-25  Score=162.03  Aligned_cols=157  Identities=15%  Similarity=0.204  Sum_probs=119.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++.++|+++|.+|+|||||++++.++.+.. ..++.....  ..+...  . +.+.+||+||+..++..+..+++.+|++
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~~-~~~t~~~~~--~~~~~~--~-~~~~~~D~~G~~~~~~~~~~~~~~ad~i   88 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLAQ-HQPTQHPTS--EELAIG--N-IKFTTFDLGGHQQARRLWKDYFPEVNGI   88 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCcc-cCCccccce--EEEEEC--C-EEEEEEECCCCHHHHHHHHHHhCCCCEE
Confidence            456999999999999999999999876543 233333222  222222  2 7899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH------------cCCeEEEec
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEK------------NGMFFIETS  177 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~------------~~~~~~~~s  177 (202)
                      |+|+|++++.++.....++..+... ...+.|+++|+||+|+..  ....++.......            ....+++||
T Consensus        89 i~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~--~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~S  166 (184)
T smart00178       89 VYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPY--AASEDELRYALGLTNTTGSKGKVGVRPLEVFMCS  166 (184)
T ss_pred             EEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccC--CCCHHHHHHHcCCCcccccccccCCceeEEEEee
Confidence            9999999999888887777766543 335789999999999854  2334444433211            133489999


Q ss_pred             cCCCCCHHHHHHHHHHHc
Q 028884          178 AKTADNINQLFEEIAKRL  195 (202)
Q Consensus       178 ~~~~~~i~~~~~~l~~~i  195 (202)
                      |+++.|++++++||.+++
T Consensus       167 a~~~~g~~~~~~wl~~~~  184 (184)
T smart00178      167 VVRRMGYGEGFKWLSQYI  184 (184)
T ss_pred             cccCCChHHHHHHHHhhC
Confidence            999999999999998754

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

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

Probab=99.94  E-value=9.8e-26  Score=152.15  Aligned_cols=163  Identities=20%  Similarity=0.272  Sum_probs=127.7

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ++++++|+++|..|+||||++++|.+... ....|  +..+..+...+.+   +.+.+||.+|+...+..|+.|+..+|+
T Consensus        13 kerE~riLiLGLdNsGKTti~~kl~~~~~-~~i~p--t~gf~Iktl~~~~---~~L~iwDvGGq~~lr~~W~nYfestdg   86 (185)
T KOG0073|consen   13 KEREVRILILGLDNSGKTTIVKKLLGEDT-DTISP--TLGFQIKTLEYKG---YTLNIWDVGGQKTLRSYWKNYFESTDG   86 (185)
T ss_pred             hhheeEEEEEecCCCCchhHHHHhcCCCc-cccCC--ccceeeEEEEecc---eEEEEEEcCCcchhHHHHHHhhhccCe
Confidence            34589999999999999999999998552 22233  3444445555444   789999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHH-cCCCCCeEEEEEeCCCCCCCC---CCCh-HHHHHHHHHcCCeEEEeccCCCCCH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKR---EVPA-QDGIEYAEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~p~ivv~nK~D~~~~~---~~~~-~~~~~~~~~~~~~~~~~s~~~~~~i  184 (202)
                      +|+|+|.+++..+++....+..+.. ....+.|++|++||.|+...-   ++.. -+..++++.+.++++-||+.+|+++
T Consensus        87 lIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~~i~~~~~L~~l~ks~~~~l~~cs~~tge~l  166 (185)
T KOG0073|consen   87 LIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGALSLEEISKALDLEELAKSHHWRLVKCSAVTGEDL  166 (185)
T ss_pred             EEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccccCHHHHHHhhCHHHhccccCceEEEEeccccccH
Confidence            9999999999888887666665433 344578999999999987431   1111 1233455778899999999999999


Q ss_pred             HHHHHHHHHHcCCC
Q 028884          185 NQLFEEIAKRLPRP  198 (202)
Q Consensus       185 ~~~~~~l~~~i~~~  198 (202)
                      .+.++||++.+.++
T Consensus       167 ~~gidWL~~~l~~r  180 (185)
T KOG0073|consen  167 LEGIDWLCDDLMSR  180 (185)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999988764

>PTZ00099 rab6; Provisional

Probab=99.94  E-value=3.9e-25  Score=157.79  Aligned_cols=141  Identities=43%  Similarity=0.766  Sum_probs=122.9

Q ss_pred             CCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcC
Q 028884           57 QFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHG  136 (202)
Q Consensus        57 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~  136 (202)
                      .+...+.++.+.++..+.+.+.+ ..+.+.||||+|++.+..++..+++++|++|+|||++++.+|+.+..|+..+....
T Consensus         4 ~F~~~~~~Tig~~~~~~~~~~~~-~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~   82 (176)
T PTZ00099          4 TFDNNYQSTIGIDFLSKTLYLDE-GPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNER   82 (176)
T ss_pred             CcCCCCCCccceEEEEEEEEECC-EEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            45566778888777666666654 45999999999999999999999999999999999999999999999999887665


Q ss_pred             CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          137 SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       137 ~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      .+++|++||+||+|+.+...+...++..++...++.++++||++|.|+.++|++|++.+.+.
T Consensus        83 ~~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~  144 (176)
T PTZ00099         83 GKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNL  144 (176)
T ss_pred             CCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            56799999999999976666777888888888899999999999999999999999998653

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

Probab=99.94  E-value=9.9e-28  Score=164.18  Aligned_cols=172  Identities=31%  Similarity=0.499  Sum_probs=156.6

Q ss_pred             CCCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccc
Q 028884           25 GSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYY  104 (202)
Q Consensus        25 ~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~  104 (202)
                      +...+.+..++++|+|..++||||+|.+|+.+-+...+..+++.++....+.+.... +++.+||+.|++++......|+
T Consensus        12 m~e~d~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Ed-vr~mlWdtagqeEfDaItkAyy   90 (246)
T KOG4252|consen   12 MDETDYERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIED-VRSMLWDTAGQEEFDAITKAYY   90 (246)
T ss_pred             CCchhhhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHH-HHHHHHHhccchhHHHHHHHHh
Confidence            445566789999999999999999999999999999999999988877777665555 7889999999999999999999


Q ss_pred             cCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCH
Q 028884          105 RGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       105 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i  184 (202)
                      +++.+.++||+.++..||+....|++.+...+ ..+|.++|-||+|+.+...+...+...+++.+++++|.+|+++..|+
T Consensus        91 rgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~-~~IPtV~vqNKIDlveds~~~~~evE~lak~l~~RlyRtSvked~NV  169 (246)
T KOG4252|consen   91 RGAQASVLVFSTTDRYSFEATLEWYNKVQKET-ERIPTVFVQNKIDLVEDSQMDKGEVEGLAKKLHKRLYRTSVKEDFNV  169 (246)
T ss_pred             ccccceEEEEecccHHHHHHHHHHHHHHHHHh-ccCCeEEeeccchhhHhhhcchHHHHHHHHHhhhhhhhhhhhhhhhh
Confidence            99999999999999999999999999998874 46999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHcCCC
Q 028884          185 NQLFEEIAKRLPRP  198 (202)
Q Consensus       185 ~~~~~~l~~~i~~~  198 (202)
                      ...|.+|++.+.+.
T Consensus       170 ~~vF~YLaeK~~q~  183 (246)
T KOG4252|consen  170 MHVFAYLAEKLTQQ  183 (246)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999887543

>cd01890 LepA LepA subfamily

Probab=99.94  E-value=3.5e-25  Score=158.76  Aligned_cols=158  Identities=21%  Similarity=0.255  Sum_probs=112.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC--C-----CCCCcc------ccceeEEEEE--EEec--CCcEEEEEEEeCCChhhhh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ--F-----DPTSKV------TVGASFLSQT--IALQ--DSTTVKFEIWDTAGQERYA   97 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~--~-----~~~~~~------~~~~~~~~~~--~~~~--~~~~~~~~i~D~~G~~~~~   97 (202)
                      +|+++|++++|||||+++|++..  +     ...+.+      +.+.......  ..+.  ++..+.+.+|||||++.+.
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   81 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFS   81 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhH
Confidence            68999999999999999998742  1     111111      1112222211  1121  3445889999999999999


Q ss_pred             hcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC---eEE
Q 028884           98 ALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM---FFI  174 (202)
Q Consensus        98 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~---~~~  174 (202)
                      ..+..+++.+|++|+|+|++++.++.....|....    ..++|+++|+||+|+.+..  ......+++...++   .++
T Consensus        82 ~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~----~~~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~  155 (179)
T cd01890          82 YEVSRSLAACEGALLLVDATQGVEAQTLANFYLAL----ENNLEIIPVINKIDLPSAD--PERVKQQIEDVLGLDPSEAI  155 (179)
T ss_pred             HHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH----HcCCCEEEEEECCCCCcCC--HHHHHHHHHHHhCCCcccEE
Confidence            88889999999999999999876666665554332    2368899999999985422  12223345555555   389


Q ss_pred             EeccCCCCCHHHHHHHHHHHcCCC
Q 028884          175 ETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       175 ~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      ++||++|.|++++|++|.+.+..|
T Consensus       156 ~~Sa~~g~gi~~l~~~l~~~~~~~  179 (179)
T cd01890         156 LVSAKTGLGVEDLLEAIVERIPPP  179 (179)
T ss_pred             EeeccCCCCHHHHHHHHHhhCCCC
Confidence            999999999999999999987653

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.

>cd01878 HflX HflX subfamily

Probab=99.94  E-value=2.8e-25  Score=162.59  Aligned_cols=157  Identities=24%  Similarity=0.249  Sum_probs=114.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChh---------hhhhccc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE---------RYAALAP  101 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~  101 (202)
                      +..++|+|+|++|||||||++++.+........+..+.......+.+.+.  ..+.+||+||..         .+...+ 
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~~~-  115 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDG--REVLLTDTVGFIRDLPHQLVEAFRSTL-  115 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhccCCccceeccceeEEEEecCC--ceEEEeCCCccccCCCHHHHHHHHHHH-
Confidence            45689999999999999999999997643333222233333333443332  379999999972         222222 


Q ss_pred             ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCC
Q 028884          102 LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTA  181 (202)
Q Consensus       102 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~  181 (202)
                      ..+..+|++++|+|++++.++.....|...+......+.|+++|+||+|+.+.....     ........+++++|++++
T Consensus       116 ~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~~~-----~~~~~~~~~~~~~Sa~~~  190 (204)
T cd01878         116 EEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEELE-----ERLEAGRPDAVFISAKTG  190 (204)
T ss_pred             HHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHHHH-----HHhhcCCCceEEEEcCCC
Confidence            235679999999999998888777777777776655678999999999986543221     334456678999999999


Q ss_pred             CCHHHHHHHHHHHc
Q 028884          182 DNINQLFEEIAKRL  195 (202)
Q Consensus       182 ~~i~~~~~~l~~~i  195 (202)
                      .|+++++++|...+
T Consensus       191 ~gi~~l~~~L~~~~  204 (204)
T cd01878         191 EGLDELLEAIEELL  204 (204)
T ss_pred             CCHHHHHHHHHhhC
Confidence            99999999998764

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.

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

Probab=99.94  E-value=3.2e-25  Score=157.37  Aligned_cols=157  Identities=17%  Similarity=0.184  Sum_probs=107.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh---------cccccc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA---------LAPLYY  104 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---------~~~~~~  104 (202)
                      .+|+++|.+|+|||||+++|.+..+.....+..+.......+..   ..+.+.+|||||......         ......
T Consensus         1 ~~i~~~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~   77 (168)
T cd01897           1 PTLVIAGYPNVGKSSLVNKLTRAKPEVAPYPFTTKSLFVGHFDY---KYLRWQVIDTPGLLDRPLEERNTIEMQAITALA   77 (168)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCccCCCCCcccceeEEEEcc---CceEEEEEECCCcCCccccCCchHHHHHHHHHH
Confidence            37999999999999999999997754322222222222222222   237899999999742110         011112


Q ss_pred             cCccEEEEEEeCCChhH--HHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCC
Q 028884          105 RGAAVAVVVYDITSPDS--FNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD  182 (202)
Q Consensus       105 ~~~d~~i~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  182 (202)
                      ..+|++|+|+|+++..+  ++....|+..+.... .+.|+++|+||+|+.+......  ...+......+++++||++|.
T Consensus        78 ~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK~Dl~~~~~~~~--~~~~~~~~~~~~~~~Sa~~~~  154 (168)
T cd01897          78 HLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNKIDLLTFEDLSE--IEEEEELEGEEVLKISTLTEE  154 (168)
T ss_pred             hccCcEEEEEeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEccccCchhhHHH--HHHhhhhccCceEEEEecccC
Confidence            23689999999998754  355567777776542 4789999999999865443322  444555567789999999999


Q ss_pred             CHHHHHHHHHHHcC
Q 028884          183 NINQLFEEIAKRLP  196 (202)
Q Consensus       183 ~i~~~~~~l~~~i~  196 (202)
                      |++++|++|.+.+.
T Consensus       155 gi~~l~~~l~~~~~  168 (168)
T cd01897         155 GVDEVKNKACELLL  168 (168)
T ss_pred             CHHHHHHHHHHHhC
Confidence            99999999998763

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.93  E-value=9.4e-25  Score=153.04  Aligned_cols=152  Identities=25%  Similarity=0.390  Sum_probs=117.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      .|+++|++|+|||||++++.+..+.....++.+.....  +..  +. +.+.+||+||++.+...+..+++.+|++++|+
T Consensus         1 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~--~~~--~~-~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~   75 (159)
T cd04159           1 EITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMRK--VTK--GN-VTLKVWDLGGQPRFRSMWERYCRGVNAIVYVV   75 (159)
T ss_pred             CEEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceEE--EEE--CC-EEEEEEECCCCHhHHHHHHHHHhcCCEEEEEE
Confidence            37999999999999999999998877776666554432  222  23 78999999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHH-----HHcCCeEEEeccCCCCCHHHHH
Q 028884          115 DITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYA-----EKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      |+++..++.....|+..+... ...++|+++|+||.|+.+...  ..+.....     .....+++++|++++.|+++++
T Consensus        76 d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  153 (159)
T cd04159          76 DAADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALS--VDELIEQMNLKSITDREVSCYSISCKEKTNIDIVL  153 (159)
T ss_pred             ECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcC--HHHHHHHhCcccccCCceEEEEEEeccCCChHHHH
Confidence            999998888877776665432 335789999999999765432  11221111     1223578999999999999999


Q ss_pred             HHHHH
Q 028884          189 EEIAK  193 (202)
Q Consensus       189 ~~l~~  193 (202)
                      ++|.+
T Consensus       154 ~~l~~  158 (159)
T cd04159         154 DWLIK  158 (159)
T ss_pred             HHHhh
Confidence            99875

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.

>cd01898 Obg Obg subfamily

Probab=99.93  E-value=6.1e-25  Score=156.20  Aligned_cols=158  Identities=18%  Similarity=0.150  Sum_probs=109.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh----hhhcccc---cccCc
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER----YAALAPL---YYRGA  107 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~---~~~~~  107 (202)
                      +|+++|.+|+|||||+++|.+........+..+.......+.+.+.  ..+.+|||||...    ...+...   .+..+
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~   79 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDDG--RSFVVADIPGLIEGASEGKGLGHRFLRHIERT   79 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccCCcceEEEcCCC--CeEEEEecCcccCcccccCCchHHHHHHHHhC
Confidence            6899999999999999999975532111111111111122222221  4799999999632    1112222   24469


Q ss_pred             cEEEEEEeCCCh-hHHHHHHHHHHHHHHcC--CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH-cCCeEEEeccCCCCC
Q 028884          108 AVAVVVYDITSP-DSFNKAQYWVKELQKHG--SPDIVMALVGNKADLHEKREVPAQDGIEYAEK-NGMFFIETSAKTADN  183 (202)
Q Consensus       108 d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~s~~~~~~  183 (202)
                      |++++|+|++++ .+++.+..|++.+....  ..++|+++|+||+|+.+.... ......+... ...+++++|++++.|
T Consensus        80 d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~g  158 (170)
T cd01898          80 RLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEEL-FELLKELLKELWGKPVFPISALTGEG  158 (170)
T ss_pred             CEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhh-HHHHHHHHhhCCCCCEEEEecCCCCC
Confidence            999999999998 78888888888876653  246899999999998665443 2334444444 367899999999999


Q ss_pred             HHHHHHHHHHHc
Q 028884          184 INQLFEEIAKRL  195 (202)
Q Consensus       184 i~~~~~~l~~~i  195 (202)
                      ++++|++|.+.+
T Consensus       159 i~~l~~~i~~~~  170 (170)
T cd01898         159 LDELLRKLAELL  170 (170)
T ss_pred             HHHHHHHHHhhC
Confidence            999999998753

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.93  E-value=1.3e-24  Score=168.82  Aligned_cols=165  Identities=18%  Similarity=0.118  Sum_probs=119.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh-------hhhccccccc
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER-------YAALAPLYYR  105 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~  105 (202)
                      ...|.++|.|++|||||++++.+........+..+.....-.+.+.++  ..+.+||+||..+       ....+..+++
T Consensus       158 ~adVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~~~--~~~~i~D~PGli~ga~~~~gLg~~flrhie  235 (335)
T PRK12299        158 LADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVDDY--KSFVIADIPGLIEGASEGAGLGHRFLKHIE  235 (335)
T ss_pred             cCCEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeCCC--cEEEEEeCCCccCCCCccccHHHHHHHHhh
Confidence            456899999999999999999986533222222233333333333222  4799999999632       2223334566


Q ss_pred             CccEEEEEEeCCChhHHHHHHHHHHHHHHcCC--CCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCC
Q 028884          106 GAAVAVVVYDITSPDSFNKAQYWVKELQKHGS--PDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADN  183 (202)
Q Consensus       106 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~  183 (202)
                      .++++|+|+|+++.++++.+..|+..+.....  .++|+++|+||+|+.............++...+.+++++||+++.|
T Consensus       236 ~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~G  315 (335)
T PRK12299        236 RTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEG  315 (335)
T ss_pred             hcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCC
Confidence            79999999999987788888889888876532  4789999999999876544433344445555667899999999999


Q ss_pred             HHHHHHHHHHHcCCCC
Q 028884          184 INQLFEEIAKRLPRPS  199 (202)
Q Consensus       184 i~~~~~~l~~~i~~~~  199 (202)
                      +++++++|.+.+.+.+
T Consensus       316 I~eL~~~L~~~l~~~~  331 (335)
T PRK12299        316 LDELLRALWELLEEAR  331 (335)
T ss_pred             HHHHHHHHHHHHHhhh
Confidence            9999999999886543

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

Probab=99.93  E-value=6.8e-24  Score=141.73  Aligned_cols=173  Identities=24%  Similarity=0.393  Sum_probs=142.8

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccc-eeEEEEEEEecCCcEEEEEEEeCCChhhh-hhcccccccCc
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVG-ASFLSQTIALQDSTTVKFEIWDTAGQERY-AALAPLYYRGA  107 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-~~~~~~~~~~~  107 (202)
                      ....-+|+|+|..++|||+++++|..+..........+ .++....+..+.+..-.+.++||.|...+ ..+-++|+.-+
T Consensus         6 mGk~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~a   85 (198)
T KOG3883|consen    6 MGKVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFA   85 (198)
T ss_pred             hCcceEEEEECCccccHHHHHHHHHhccCCCCCccccchhhheeEeeecCCChhheEEEeecccccCchhhhhHhHhccC
Confidence            34578999999999999999999998765444332222 24445556666666568999999998777 56778899999


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQ  186 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~  186 (202)
                      |++++||+..+++||+.+.-.-..|.+. ....+|++|++||+|+.++..+..+.+..|++...++++++++.+...+-+
T Consensus        86 DafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~eVta~dR~sL~e  165 (198)
T KOG3883|consen   86 DAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAKREKVKLWEVTAMDRPSLYE  165 (198)
T ss_pred             ceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHHhhhheeEEEEEeccchhhhh
Confidence            9999999999999998875555555554 456799999999999998889999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCCCCC
Q 028884          187 LFEEIAKRLPRPSPSS  202 (202)
Q Consensus       187 ~~~~l~~~i~~~~~~~  202 (202)
                      .|.+|..++..+..+|
T Consensus       166 pf~~l~~rl~~pqskS  181 (198)
T KOG3883|consen  166 PFTYLASRLHQPQSKS  181 (198)
T ss_pred             HHHHHHHhccCCcccc
Confidence            9999999999887654

>cd04155 Arl3 Arl3 subfamily

Probab=99.93  E-value=8.4e-24  Score=150.82  Aligned_cols=156  Identities=19%  Similarity=0.276  Sum_probs=113.9

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ..+.++|+++|++|+|||||++++.+..+.. ..++.+..  ...+...+   ..+.+||++|+..+...+..+++.+|+
T Consensus        11 ~~~~~~v~i~G~~g~GKStLl~~l~~~~~~~-~~~t~g~~--~~~i~~~~---~~~~~~D~~G~~~~~~~~~~~~~~~~~   84 (173)
T cd04155          11 SSEEPRILILGLDNAGKTTILKQLASEDISH-ITPTQGFN--IKTVQSDG---FKLNVWDIGGQRAIRPYWRNYFENTDC   84 (173)
T ss_pred             cCCccEEEEEccCCCCHHHHHHHHhcCCCcc-cCCCCCcc--eEEEEECC---EEEEEEECCCCHHHHHHHHHHhcCCCE
Confidence            3457999999999999999999999875532 23333322  22233322   689999999999888888888999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc-----CCeEEEeccCCCCC
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN-----GMFFIETSAKTADN  183 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~s~~~~~~  183 (202)
                      +++|+|.++..++.....++..+... ...++|+++++||+|+.+...  ..+........     ..+++++||++|.|
T Consensus        85 ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~i~~~l~~~~~~~~~~~~~~~Sa~~~~g  162 (173)
T cd04155          85 LIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAAP--AEEIAEALNLHDLRDRTWHIQACSAKTGEG  162 (173)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCCC--HHHHHHHcCCcccCCCeEEEEEeECCCCCC
Confidence            99999999988888777666655433 335799999999999765322  22222211111     12478999999999


Q ss_pred             HHHHHHHHHH
Q 028884          184 INQLFEEIAK  193 (202)
Q Consensus       184 i~~~~~~l~~  193 (202)
                      ++++|++|++
T Consensus       163 i~~~~~~l~~  172 (173)
T cd04155         163 LQEGMNWVCK  172 (173)
T ss_pred             HHHHHHHHhc
Confidence            9999999975

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.

>cd04171 SelB SelB subfamily

Probab=99.92  E-value=5.6e-24  Score=150.20  Aligned_cols=155  Identities=15%  Similarity=0.120  Sum_probs=103.6

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC---CCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ---FDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ..|+++|.+|+|||||+++|.+..   +.....+..+.......+.+.++  ..+.+|||||++.+......++..+|++
T Consensus         1 ~~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~DtpG~~~~~~~~~~~~~~ad~i   78 (164)
T cd04171           1 MIIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPSG--KRLGFIDVPGHEKFIKNMLAGAGGIDLV   78 (164)
T ss_pred             CEEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecCC--cEEEEEECCChHHHHHHHHhhhhcCCEE
Confidence            368999999999999999999643   22222223333333333443322  5799999999998877677778899999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC--CChHHHHHHHHH---cCCeEEEeccCCCCCHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE--VPAQDGIEYAEK---NGMFFIETSAKTADNIN  185 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~---~~~~~~~~s~~~~~~i~  185 (202)
                      ++|+|+++... .....++..+....  ..|+++++||+|+.+...  ....+..+....   .+.+++++|++++.|++
T Consensus        79 i~V~d~~~~~~-~~~~~~~~~~~~~~--~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  155 (164)
T cd04171          79 LLVVAADEGIM-PQTREHLEILELLG--IKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGEGIE  155 (164)
T ss_pred             EEEEECCCCcc-HhHHHHHHHHHHhC--CCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCcCHH
Confidence            99999987321 11122222222221  248999999999865321  112233333333   45789999999999999


Q ss_pred             HHHHHHHH
Q 028884          186 QLFEEIAK  193 (202)
Q Consensus       186 ~~~~~l~~  193 (202)
                      ++++.+.+
T Consensus       156 ~l~~~l~~  163 (164)
T cd04171         156 ELKEYLDE  163 (164)
T ss_pred             HHHHHHhh
Confidence            99998864

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

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

Probab=99.92  E-value=6.9e-24  Score=150.42  Aligned_cols=159  Identities=14%  Similarity=0.135  Sum_probs=109.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      .|+|+|.+|+|||||+++|..+.+........+.......+.........+.+|||||+..+..++..++..+|++++|+
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~   81 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVV   81 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEE
Confidence            48999999999999999999987665544334433333333332112368999999999999888888889999999999


Q ss_pred             eCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHH-HHHHHH------HcCCeEEEeccCCCCCHHHH
Q 028884          115 DITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQD-GIEYAE------KNGMFFIETSAKTADNINQL  187 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~-~~~~~~------~~~~~~~~~s~~~~~~i~~~  187 (202)
                      |++++..... ...+..+..   .++|+++|+||+|+.......... ...+..      ....+++++|++++.|+.++
T Consensus        82 d~~~~~~~~~-~~~~~~~~~---~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  157 (168)
T cd01887          82 AADDGVMPQT-IEAIKLAKA---ANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDL  157 (168)
T ss_pred             ECCCCccHHH-HHHHHHHHH---cCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEeecccCCCHHHH
Confidence            9998532221 222223332   468899999999986432111111 111111      12357999999999999999


Q ss_pred             HHHHHHHcCC
Q 028884          188 FEEIAKRLPR  197 (202)
Q Consensus       188 ~~~l~~~i~~  197 (202)
                      +++|.+...+
T Consensus       158 ~~~l~~~~~~  167 (168)
T cd01887         158 LEAILLLAEK  167 (168)
T ss_pred             HHHHHHhhhc
Confidence            9999887543

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.92  E-value=1.7e-23  Score=146.32  Aligned_cols=158  Identities=32%  Similarity=0.506  Sum_probs=121.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .+||+++|.+|+|||||++++........+.++.+.......+... +..+.+.+||+||+..+..++..+.+.++.+++
T Consensus         1 ~~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~   79 (161)
T TIGR00231         1 EIKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEED-GKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLR   79 (161)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEEC-CEEEEEEEEECCCcccchHHHHHHHhhhhEEEE
Confidence            3799999999999999999999988665666666666655445443 333789999999999888888888889999999


Q ss_pred             EEeCCCh-hHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          113 VYDITSP-DSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       113 v~d~~~~-~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      ++|.... .++.... .|+..+......+.|+++++||+|+.... ........+......+++++||+++.|+.+++++
T Consensus        80 ~~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~  158 (161)
T TIGR00231        80 VFDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKI  158 (161)
T ss_pred             EEEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch-hhHHHHHHHhhccCCceEEeecCCCCCHHHHHHH
Confidence            9998876 5565543 66666665543388999999999986543 3333333444445667999999999999999998


Q ss_pred             HH
Q 028884          191 IA  192 (202)
Q Consensus       191 l~  192 (202)
                      |.
T Consensus       159 l~  160 (161)
T TIGR00231       159 VE  160 (161)
T ss_pred             hh
Confidence            64

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.92  E-value=2.2e-23  Score=163.10  Aligned_cols=155  Identities=25%  Similarity=0.254  Sum_probs=113.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCCh---------hhhhhcccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ---------ERYAALAPL  102 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~---------~~~~~~~~~  102 (202)
                      ..++|+++|.+|+|||||+|+|.+........+..+.+.....+.++++  ..+.+|||+|.         +.|...+. 
T Consensus       188 ~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~~--~~i~l~DT~G~~~~l~~~lie~f~~tle-  264 (351)
T TIGR03156       188 DVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDG--GEVLLTDTVGFIRDLPHELVAAFRATLE-  264 (351)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCCC--ceEEEEecCcccccCCHHHHHHHHHHHH-
Confidence            4589999999999999999999997643333333444555555666443  37899999997         23333332 


Q ss_pred             cccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCC
Q 028884          103 YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD  182 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  182 (202)
                      .+..+|++++|+|++++.+++.+..|...+......++|+++|+||+|+.....     .... .....+++.+||++|.
T Consensus       265 ~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~~-----v~~~-~~~~~~~i~iSAktg~  338 (351)
T TIGR03156       265 EVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEPR-----IERL-EEGYPEAVFVSAKTGE  338 (351)
T ss_pred             HHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCChHh-----HHHH-HhCCCCEEEEEccCCC
Confidence            477899999999999988777777776666665555789999999999864321     1111 1223458999999999


Q ss_pred             CHHHHHHHHHHHc
Q 028884          183 NINQLFEEIAKRL  195 (202)
Q Consensus       183 ~i~~~~~~l~~~i  195 (202)
                      |+++++++|.+.+
T Consensus       339 GI~eL~~~I~~~~  351 (351)
T TIGR03156       339 GLDLLLEAIAERL  351 (351)
T ss_pred             CHHHHHHHHHhhC
Confidence            9999999998753

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).

>TIGR00436 era GTP-binding protein Era

Probab=99.91  E-value=2.1e-23  Score=158.67  Aligned_cols=157  Identities=22%  Similarity=0.150  Sum_probs=108.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhh--------hhcccccccC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY--------AALAPLYYRG  106 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~~~~  106 (202)
                      +|+++|.+|+|||||+|+|.+...........++......+...++  ..+.+|||||....        ......++..
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~i~~i~~~~~--~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~   79 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTGA--SQIIFIDTPGFHEKKHSLNRLMMKEARSAIGG   79 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCcEEEEEEcCC--cEEEEEECcCCCCCcchHHHHHHHHHHHHHhh
Confidence            6899999999999999999998765444333333222223332233  46899999996431        1123456788


Q ss_pred             ccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC-eEEEeccCCCCCHH
Q 028884          107 AAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM-FFIETSAKTADNIN  185 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~s~~~~~~i~  185 (202)
                      +|++++|+|+++..+..  ..++..+..   .+.|+++|+||+|+..... .......++..... +++++||++|.|++
T Consensus        80 aDvvl~VvD~~~~~~~~--~~i~~~l~~---~~~p~ilV~NK~Dl~~~~~-~~~~~~~~~~~~~~~~v~~iSA~~g~gi~  153 (270)
T TIGR00436        80 VDLILFVVDSDQWNGDG--EFVLTKLQN---LKRPVVLTRNKLDNKFKDK-LLPLIDKYAILEDFKDIVPISALTGDNTS  153 (270)
T ss_pred             CCEEEEEEECCCCCchH--HHHHHHHHh---cCCCEEEEEECeeCCCHHH-HHHHHHHHHhhcCCCceEEEecCCCCCHH
Confidence            99999999999875553  334444443   3689999999999864322 22333344444443 79999999999999


Q ss_pred             HHHHHHHHHcCCCC
Q 028884          186 QLFEEIAKRLPRPS  199 (202)
Q Consensus       186 ~~~~~l~~~i~~~~  199 (202)
                      +++++|.+.+.+..
T Consensus       154 ~L~~~l~~~l~~~~  167 (270)
T TIGR00436       154 FLAAFIEVHLPEGP  167 (270)
T ss_pred             HHHHHHHHhCCCCC
Confidence            99999999987654

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

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.91  E-value=4.9e-24  Score=147.31  Aligned_cols=134  Identities=22%  Similarity=0.241  Sum_probs=97.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChh-----hhhhcccccccCccE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE-----RYAALAPLYYRGAAV  109 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-----~~~~~~~~~~~~~d~  109 (202)
                      ||+++|++|+|||||+++|.+..+.  +.++.+       +.      +.-.+||+||..     .+..+.. .++++|+
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~--~~~t~~-------~~------~~~~~iDt~G~~~~~~~~~~~~~~-~~~~ad~   65 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL--YKKTQA-------VE------YNDGAIDTPGEYVENRRLYSALIV-TAADADV   65 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc--ccccee-------EE------EcCeeecCchhhhhhHHHHHHHHH-HhhcCCE
Confidence            7999999999999999999986542  111111       11      112689999972     3444433 4789999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC-eEEEeccCCCCCHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM-FFIETSAKTADNINQLF  188 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~s~~~~~~i~~~~  188 (202)
                      +|+|||++++.++.. ..|...+      ..|+++|+||+|+.+. ....++..++++..+. +++++||+++.|++++|
T Consensus        66 vilv~d~~~~~s~~~-~~~~~~~------~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  137 (142)
T TIGR02528        66 IALVQSATDPESRFP-PGFASIF------VKPVIGLVTKIDLAEA-DVDIERAKELLETAGAEPIFEISSVDEQGLEALV  137 (142)
T ss_pred             EEEEecCCCCCcCCC-hhHHHhc------cCCeEEEEEeeccCCc-ccCHHHHHHHHHHcCCCcEEEEecCCCCCHHHHH
Confidence            999999999987654 3343321      2489999999998653 3445566677777665 79999999999999999


Q ss_pred             HHHH
Q 028884          189 EEIA  192 (202)
Q Consensus       189 ~~l~  192 (202)
                      ++|.
T Consensus       138 ~~l~  141 (142)
T TIGR02528       138 DYLN  141 (142)
T ss_pred             HHHh
Confidence            9875

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

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

Probab=99.91  E-value=9.3e-24  Score=146.06  Aligned_cols=164  Identities=17%  Similarity=0.306  Sum_probs=130.1

Q ss_pred             CCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccC
Q 028884           27 SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRG  106 (202)
Q Consensus        27 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~  106 (202)
                      ......+.+|+++|..++||||++.+|..++.... -|+++...  ..+.+.+   +.+++||..|+++++..|+.|+++
T Consensus        11 ~~~~~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiGfnV--E~v~ykn---~~f~vWDvGGq~k~R~lW~~Y~~~   84 (181)
T KOG0070|consen   11 GLFGKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIGFNV--ETVEYKN---ISFTVWDVGGQEKLRPLWKHYFQN   84 (181)
T ss_pred             hccCcceEEEEEEeccCCCceeeeEeeccCCcccC-CCccccce--eEEEEcc---eEEEEEecCCCcccccchhhhccC
Confidence            34556789999999999999999999998776444 55555544  4455544   789999999999999999999999


Q ss_pred             ccEEEEEEeCCChhHHHHHHHHHHHHHHcC-CCCCeEEEEEeCCCCCCCCCCChHHHHHHHH-----HcCCeEEEeccCC
Q 028884          107 AAVAVVVYDITSPDSFNKAQYWVKELQKHG-SPDIVMALVGNKADLHEKREVPAQDGIEYAE-----KNGMFFIETSAKT  180 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~~  180 (202)
                      .+++|||+|.++++.+.+.+..+..+.... ....|+++++||.|++..-.  ..+......     .....+..|+|.+
T Consensus        85 t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als--~~ei~~~L~l~~l~~~~w~iq~~~a~~  162 (181)
T KOG0070|consen   85 TQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGALS--AAEITNKLGLHSLRSRNWHIQSTCAIS  162 (181)
T ss_pred             CcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccCC--HHHHHhHhhhhccCCCCcEEeeccccc
Confidence            999999999999999988888777776653 36899999999999876432  222222222     2344577899999


Q ss_pred             CCCHHHHHHHHHHHcCCC
Q 028884          181 ADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       181 ~~~i~~~~~~l~~~i~~~  198 (202)
                      |+|+.+.+++|.+.+..+
T Consensus       163 G~GL~egl~wl~~~~~~~  180 (181)
T KOG0070|consen  163 GEGLYEGLDWLSNNLKKR  180 (181)
T ss_pred             cccHHHHHHHHHHHHhcc
Confidence            999999999999988764

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

Probab=99.91  E-value=1.1e-22  Score=150.48  Aligned_cols=164  Identities=38%  Similarity=0.575  Sum_probs=131.9

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .++|+|+|+.|+|||||+++|.++.+...+.++.+..+.......... .+.+.+||++|+++++.++..+..+++++++
T Consensus         5 ~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~-~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~   83 (219)
T COG1100           5 EFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRR-NIKLQLWDTAGQEEYRSLRPEYYRGANGILI   83 (219)
T ss_pred             eEEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCC-EEEEEeecCCCHHHHHHHHHHHhcCCCEEEE
Confidence            499999999999999999999999998888887777665655554433 5889999999999999999999999999999


Q ss_pred             EEeCCCh-hHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC------------CChHHHHHHHHHc---CCeEEEe
Q 028884          113 VYDITSP-DSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE------------VPAQDGIEYAEKN---GMFFIET  176 (202)
Q Consensus       113 v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~------------~~~~~~~~~~~~~---~~~~~~~  176 (202)
                      |+|..+. .+++....|+..+......+.|+++++||+|+.....            .............   ...++++
T Consensus        84 ~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (219)
T COG1100          84 VYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLET  163 (219)
T ss_pred             EEecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeEe
Confidence            9999994 5556668999998887656799999999999976532            2222222222222   2338999


Q ss_pred             ccC--CCCCHHHHHHHHHHHcCC
Q 028884          177 SAK--TADNINQLFEEIAKRLPR  197 (202)
Q Consensus       177 s~~--~~~~i~~~~~~l~~~i~~  197 (202)
                      |++  .+.++.++|..+...+..
T Consensus       164 s~~~~~~~~v~~~~~~~~~~~~~  186 (219)
T COG1100         164 SAKSLTGPNVNELFKELLRKLLE  186 (219)
T ss_pred             ecccCCCcCHHHHHHHHHHHHHH
Confidence            999  999999999999888754

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.91  E-value=9.1e-23  Score=141.41  Aligned_cols=154  Identities=43%  Similarity=0.751  Sum_probs=116.8

Q ss_pred             EEcCCCCcHHHHHHHHHhCCC-CCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeC
Q 028884           38 LLGDSGVGKSCIVLRFVRGQF-DPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDI  116 (202)
Q Consensus        38 v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~  116 (202)
                      |+|++|+|||||++++.+... .....++. ........... .....+.+||+||...+...+..+++.+|++++|+|.
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~-~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   78 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVD-GKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDV   78 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEEC-CEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEEC
Confidence            589999999999999998776 33333333 44444444433 2337899999999998888778889999999999999


Q ss_pred             CChhHHHHHHHHH-HHHHHcCCCCCeEEEEEeCCCCCCCCCCChHH-HHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          117 TSPDSFNKAQYWV-KELQKHGSPDIVMALVGNKADLHEKREVPAQD-GIEYAEKNGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       117 ~~~~s~~~~~~~~-~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~-~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      +++.++.....|+ .........+.|+++++||+|+.......... ..........+++++|+.++.|+.+++++|.+
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~  157 (157)
T cd00882          79 TDRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGENVEELFEELAE  157 (157)
T ss_pred             cCHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHhC
Confidence            9998888887762 33333456789999999999987654433322 34455566788999999999999999999863

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

>PRK04213 GTP-binding protein; Provisional

Probab=99.91  E-value=8.6e-24  Score=154.38  Aligned_cols=155  Identities=26%  Similarity=0.224  Sum_probs=104.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCC-----------hhhhhhcc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG-----------QERYAALA  100 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G-----------~~~~~~~~  100 (202)
                      ..++|+++|.+|+|||||+++|.+..+.....++.+  .....+...     .+.+|||||           .+.++..+
T Consensus         8 ~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~~~t--~~~~~~~~~-----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   80 (201)
T PRK04213          8 RKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRPGVT--RKPNHYDWG-----DFILTDLPGFGFMSGVPKEVQEKIKDEI   80 (201)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCcee--eCceEEeec-----ceEEEeCCccccccccCHHHHHHHHHHH
Confidence            468999999999999999999998775433333332  222222221     589999999           45666655


Q ss_pred             ccccc----CccEEEEEEeCCChhHH-H---------HHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHH
Q 028884          101 PLYYR----GAAVAVVVYDITSPDSF-N---------KAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYA  166 (202)
Q Consensus       101 ~~~~~----~~d~~i~v~d~~~~~s~-~---------~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~  166 (202)
                      ..++.    .++++++|+|.+....+ .         .....+..+.   ..++|+++|+||+|+.+..   .+...+++
T Consensus        81 ~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~p~iiv~NK~Dl~~~~---~~~~~~~~  154 (201)
T PRK04213         81 VRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLR---ELGIPPIVAVNKMDKIKNR---DEVLDEIA  154 (201)
T ss_pred             HHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHH---HcCCCeEEEEECccccCcH---HHHHHHHH
Confidence            55543    45788899998653211 0         0011122222   2478999999999986533   23444555


Q ss_pred             HHcCC---------eEEEeccCCCCCHHHHHHHHHHHcCCCCC
Q 028884          167 EKNGM---------FFIETSAKTADNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       167 ~~~~~---------~~~~~s~~~~~~i~~~~~~l~~~i~~~~~  200 (202)
                      ..++.         +++++||++| |+++++++|.+.+.+.+.
T Consensus       155 ~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~~~~  196 (201)
T PRK04213        155 ERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHEAKR  196 (201)
T ss_pred             HHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcCccc
Confidence            55554         4799999999 999999999999877553

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

Probab=99.91  E-value=4.5e-23  Score=149.78  Aligned_cols=160  Identities=18%  Similarity=0.270  Sum_probs=107.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh--CCCCCCC------------ccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR--GQFDPTS------------KVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAAL   99 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~--~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   99 (202)
                      -+|+++|.+++|||||+++|+.  +.+....            ..+.+.........+..+. +.+.+|||||++.|...
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~-~~~~l~DtpG~~~~~~~   81 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKD-TKINIVDTPGHADFGGE   81 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECC-EEEEEEECCCcHHHHHH
Confidence            4899999999999999999997  4433221            1112222222222232233 78999999999999999


Q ss_pred             ccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC-CChHHHHHHHH-------HcCC
Q 028884          100 APLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE-VPAQDGIEYAE-------KNGM  171 (202)
Q Consensus       100 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~-~~~~~~~~~~~-------~~~~  171 (202)
                      +..+++.+|++++|+|+++.. +.....++..+..   .++|+++|+||+|+..... ...++...+..       ..++
T Consensus        82 ~~~~~~~~d~~ilV~d~~~~~-~~~~~~~~~~~~~---~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (194)
T cd01891          82 VERVLSMVDGVLLLVDASEGP-MPQTRFVLKKALE---LGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLDF  157 (194)
T ss_pred             HHHHHHhcCEEEEEEECCCCc-cHHHHHHHHHHHH---cCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCcc
Confidence            999999999999999998742 2233334444332   3688999999999865322 12233344432       2367


Q ss_pred             eEEEeccCCCCC----------HHHHHHHHHHHcCCC
Q 028884          172 FFIETSAKTADN----------INQLFEEIAKRLPRP  198 (202)
Q Consensus       172 ~~~~~s~~~~~~----------i~~~~~~l~~~i~~~  198 (202)
                      +++++|+++|.|          +.++++.|.++++.|
T Consensus       158 ~iv~~Sa~~g~~~~~~~~~~~~~~~l~~~~~~~~~~~  194 (194)
T cd01891         158 PVLYASAKNGWASLNLEDPSEDLEPLFDTIIEHVPAP  194 (194)
T ss_pred             CEEEeehhccccccccccchhhHHHHHHHHHhcCCCC
Confidence            899999999965          456666666666543

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

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

Probab=99.91  E-value=6.6e-23  Score=143.93  Aligned_cols=149  Identities=22%  Similarity=0.229  Sum_probs=107.4

Q ss_pred             EEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh------cccccc--cCccE
Q 028884           38 LLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA------LAPLYY--RGAAV  109 (202)
Q Consensus        38 v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~--~~~d~  109 (202)
                      |+|.+|+|||||++++.+........+..+.......+.+.+   ..+.+|||||...+..      ++..++  +.+|+
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~---~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~   77 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG---KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDL   77 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC---eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcE
Confidence            589999999999999998764433344444444444455443   5799999999876543      234444  48999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|+|+|.+++....   .++..+..   .++|+++|+||+|+.+...... ....+....+.+++++|++++.|++++++
T Consensus        78 vi~v~d~~~~~~~~---~~~~~~~~---~~~~~iiv~NK~Dl~~~~~~~~-~~~~~~~~~~~~~~~iSa~~~~~~~~l~~  150 (158)
T cd01879          78 IVNVVDATNLERNL---YLTLQLLE---LGLPVVVALNMIDEAEKRGIKI-DLDKLSELLGVPVVPTSARKGEGIDELKD  150 (158)
T ss_pred             EEEEeeCCcchhHH---HHHHHHHH---cCCCEEEEEehhhhcccccchh-hHHHHHHhhCCCeEEEEccCCCCHHHHHH
Confidence            99999999864322   33333332   3689999999999876543332 34566677788999999999999999999


Q ss_pred             HHHHHcC
Q 028884          190 EIAKRLP  196 (202)
Q Consensus       190 ~l~~~i~  196 (202)
                      +|.+.+.
T Consensus       151 ~l~~~~~  157 (158)
T cd01879         151 AIAELAE  157 (158)
T ss_pred             HHHHHhc
Confidence            9988653

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.

>PRK15494 era GTPase Era; Provisional

Probab=99.91  E-value=2.4e-22  Score=157.00  Aligned_cols=159  Identities=21%  Similarity=0.310  Sum_probs=108.8

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccc-cceeEEEEEEEecCCcEEEEEEEeCCChhh-hhhc-------c
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVT-VGASFLSQTIALQDSTTVKFEIWDTAGQER-YAAL-------A  100 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~-------~  100 (202)
                      +++.++|+++|.+|+|||||+|+|.+..+....... .+.......+...+   ..+.+|||||... +..+       .
T Consensus        49 ~~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~~---~qi~~~DTpG~~~~~~~l~~~~~r~~  125 (339)
T PRK15494         49 NQKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKD---TQVILYDTPGIFEPKGSLEKAMVRCA  125 (339)
T ss_pred             ccceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeCC---eEEEEEECCCcCCCcccHHHHHHHHH
Confidence            456789999999999999999999998764322211 12222222333322   4789999999742 1111       1


Q ss_pred             cccccCccEEEEEEeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcC--CeEEEec
Q 028884          101 PLYYRGAAVAVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNG--MFFIETS  177 (202)
Q Consensus       101 ~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~s  177 (202)
                      ...+..+|++++|+|..+.  +... ..|+..+...   +.|.++|+||+|+.+.   ...+..+++....  ..++++|
T Consensus       126 ~~~l~~aDvil~VvD~~~s--~~~~~~~il~~l~~~---~~p~IlViNKiDl~~~---~~~~~~~~l~~~~~~~~i~~iS  197 (339)
T PRK15494        126 WSSLHSADLVLLIIDSLKS--FDDITHNILDKLRSL---NIVPIFLLNKIDIESK---YLNDIKAFLTENHPDSLLFPIS  197 (339)
T ss_pred             HHHhhhCCEEEEEEECCCC--CCHHHHHHHHHHHhc---CCCEEEEEEhhcCccc---cHHHHHHHHHhcCCCcEEEEEe
Confidence            2246789999999998764  4344 3455555433   4677889999998643   2344555555443  5799999


Q ss_pred             cCCCCCHHHHHHHHHHHcCCCC
Q 028884          178 AKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       178 ~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      |++|.|++++|++|.+.+.+..
T Consensus       198 Aktg~gv~eL~~~L~~~l~~~~  219 (339)
T PRK15494        198 ALSGKNIDGLLEYITSKAKISP  219 (339)
T ss_pred             ccCccCHHHHHHHHHHhCCCCC
Confidence            9999999999999999887653

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.90  E-value=9.7e-23  Score=158.19  Aligned_cols=160  Identities=20%  Similarity=0.140  Sum_probs=112.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh-------hhhccccccc
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER-------YAALAPLYYR  105 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~  105 (202)
                      ...|+++|.+++|||||+++|..........+..+.......+.+.+  ...+.+||+||..+       ....+...+.
T Consensus       157 ~adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~~~--~~~~~i~D~PGli~~a~~~~gLg~~flrhie  234 (329)
T TIGR02729       157 LADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDD--GRSFVIADIPGLIEGASEGAGLGHRFLKHIE  234 (329)
T ss_pred             cccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEEEEEEeCC--ceEEEEEeCCCcccCCcccccHHHHHHHHHH
Confidence            46789999999999999999998653222222222222222333322  25789999999642       1222233455


Q ss_pred             CccEEEEEEeCCCh---hHHHHHHHHHHHHHHcC--CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCC
Q 028884          106 GAAVAVVVYDITSP---DSFNKAQYWVKELQKHG--SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT  180 (202)
Q Consensus       106 ~~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~  180 (202)
                      .+|++|+|+|+++.   ++++.+..|.+.+....  ..+.|++||+||+|+..... ..+....++...+.+++++||++
T Consensus       235 rad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~-~~~~~~~l~~~~~~~vi~iSAkt  313 (329)
T TIGR02729       235 RTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEE-LAELLKELKKALGKPVFPISALT  313 (329)
T ss_pred             hhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHH-HHHHHHHHHHHcCCcEEEEEccC
Confidence            79999999999976   56777777877765542  24789999999999865432 23334445556677899999999


Q ss_pred             CCCHHHHHHHHHHHc
Q 028884          181 ADNINQLFEEIAKRL  195 (202)
Q Consensus       181 ~~~i~~~~~~l~~~i  195 (202)
                      +.|+++++++|.+.+
T Consensus       314 g~GI~eL~~~I~~~l  328 (329)
T TIGR02729       314 GEGLDELLYALAELL  328 (329)
T ss_pred             CcCHHHHHHHHHHHh
Confidence            999999999998865

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.

>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=99.90  E-value=2.7e-23  Score=143.70  Aligned_cols=148  Identities=24%  Similarity=0.305  Sum_probs=104.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh------hhhcccccc--c
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER------YAALAPLYY--R  105 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~------~~~~~~~~~--~  105 (202)
                      ++|+++|.||+|||||+|+|++........+..+.+.....+.+.+   ..+.++|+||.-.      -......++  .
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~---~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~   77 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGD---QQVELVDLPGIYSLSSKSEEERVARDYLLSE   77 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT---EEEEEEE----SSSSSSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecC---ceEEEEECCCcccCCCCCcHHHHHHHHHhhc
Confidence            6899999999999999999999875544456666666555566544   5899999999311      122223333  5


Q ss_pred             CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHH
Q 028884          106 GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNIN  185 (202)
Q Consensus       106 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~  185 (202)
                      ..|++|+|+|+++.   ++-......+...   ++|+++++||+|..+..... .+...+.+.++++++.+||++++|++
T Consensus        78 ~~D~ii~VvDa~~l---~r~l~l~~ql~e~---g~P~vvvlN~~D~a~~~g~~-id~~~Ls~~Lg~pvi~~sa~~~~g~~  150 (156)
T PF02421_consen   78 KPDLIIVVVDATNL---ERNLYLTLQLLEL---GIPVVVVLNKMDEAERKGIE-IDAEKLSERLGVPVIPVSARTGEGID  150 (156)
T ss_dssp             SSSEEEEEEEGGGH---HHHHHHHHHHHHT---TSSEEEEEETHHHHHHTTEE-E-HHHHHHHHTS-EEEEBTTTTBTHH
T ss_pred             CCCEEEEECCCCCH---HHHHHHHHHHHHc---CCCEEEEEeCHHHHHHcCCE-ECHHHHHHHhCCCEEEEEeCCCcCHH
Confidence            78999999999874   3323333444443   79999999999976654432 34677788899999999999999999


Q ss_pred             HHHHHH
Q 028884          186 QLFEEI  191 (202)
Q Consensus       186 ~~~~~l  191 (202)
                      ++++.|
T Consensus       151 ~L~~~I  156 (156)
T PF02421_consen  151 ELKDAI  156 (156)
T ss_dssp             HHHHHH
T ss_pred             HHHhhC
Confidence            999875

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 ....

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

Probab=99.90  E-value=1.4e-23  Score=139.26  Aligned_cols=159  Identities=25%  Similarity=0.351  Sum_probs=125.5

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      .++.+.++|..++|||||+|....+.+...-.++.+..-    .++..+. +.+.+||.||++.++++|+.|.+.+++++
T Consensus        19 ~emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvGfnm----rk~tkgn-vtiklwD~gGq~rfrsmWerycR~v~aiv   93 (186)
T KOG0075|consen   19 EEMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVGFNM----RKVTKGN-VTIKLWDLGGQPRFRSMWERYCRGVSAIV   93 (186)
T ss_pred             heeeEEEEeeccCCcceEEEEEeeccchhhhccccccee----EEeccCc-eEEEEEecCCCccHHHHHHHHhhcCcEEE
Confidence            468899999999999999999988887777666666544    2333454 89999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH-----cCCeEEEeccCCCCCHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEK-----NGMFFIETSAKTADNIN  185 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~s~~~~~~i~  185 (202)
                      ||+|+++++.+...+..+..+... ...++|++|++||.|++..-  ...........     ..+-.|.+|+++..|++
T Consensus        94 Y~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL--~~~~li~rmgL~sitdREvcC~siScke~~Nid  171 (186)
T KOG0075|consen   94 YVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGAL--SKIALIERMGLSSITDREVCCFSISCKEKVNID  171 (186)
T ss_pred             EEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcccc--cHHHHHHHhCccccccceEEEEEEEEcCCccHH
Confidence            999999998888777776665543 56789999999999976542  22222222222     12347999999999999


Q ss_pred             HHHHHHHHHcCC
Q 028884          186 QLFEEIAKRLPR  197 (202)
Q Consensus       186 ~~~~~l~~~i~~  197 (202)
                      .+.+||+++-..
T Consensus       172 ~~~~Wli~hsk~  183 (186)
T KOG0075|consen  172 ITLDWLIEHSKS  183 (186)
T ss_pred             HHHHHHHHHhhh
Confidence            999999987543

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.90  E-value=4.2e-22  Score=143.75  Aligned_cols=156  Identities=16%  Similarity=0.127  Sum_probs=110.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCcc----------------ccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKV----------------TVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA   98 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   98 (202)
                      +|+|+|.+|+|||||+++|.+.........                ..+...........   ...+.+||+||...+..
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~liDtpG~~~~~~   77 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWP---DRRVNFIDTPGHEDFSS   77 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeC---CEEEEEEeCCCcHHHHH
Confidence            589999999999999999998765443311                11122222222222   26899999999998888


Q ss_pred             cccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC--hHHHHHHHHH--------
Q 028884           99 LAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP--AQDGIEYAEK--------  168 (202)
Q Consensus        99 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~--------  168 (202)
                      .+..+++.+|++++|+|++++.+.. ...++..+..   .+.|+++|+||+|+..+....  .....+..+.        
T Consensus        78 ~~~~~~~~~d~~i~v~d~~~~~~~~-~~~~~~~~~~---~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (189)
T cd00881          78 EVIRGLSVSDGAILVVDANEGVQPQ-TREHLRIARE---GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKE  153 (189)
T ss_pred             HHHHHHHhcCEEEEEEECCCCCcHH-HHHHHHHHHH---CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhh
Confidence            8888899999999999999865433 2334444433   478999999999987532211  1222233322        


Q ss_pred             ------cCCeEEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          169 ------NGMFFIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       169 ------~~~~~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                            ...+++++|++++.|+.+++++|.+.+..
T Consensus       154 ~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l~~  188 (189)
T cd00881         154 EGTRNGLLVPIVPGSALTGIGVEELLEAIVEHLPP  188 (189)
T ss_pred             hhcccCCcceEEEEecccCcCHHHHHHHHHhhCCC
Confidence                  35679999999999999999999999864

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.

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

Probab=99.90  E-value=1.3e-22  Score=144.84  Aligned_cols=156  Identities=21%  Similarity=0.200  Sum_probs=106.2

Q ss_pred             EEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhh----hhcc---cccccCccEE
Q 028884           38 LLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY----AALA---PLYYRGAAVA  110 (202)
Q Consensus        38 v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----~~~~---~~~~~~~d~~  110 (202)
                      ++|++|+|||||+++|.+........+..+.......+.+.++  ..+.+||+||....    +.++   ...++.+|++
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~i   78 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPNLGVVEVPDG--ARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAI   78 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCcceEEEcCCC--CeEEEEeccccchhhhcCCCccHHHHHHHhccCEE
Confidence            5899999999999999997642111111222222222333212  57899999996321    1222   2346779999


Q ss_pred             EEEEeCCCh------hHHHHHHHHHHHHHHcCC-------CCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEec
Q 028884          111 VVVYDITSP------DSFNKAQYWVKELQKHGS-------PDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       111 i~v~d~~~~------~s~~~~~~~~~~i~~~~~-------~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s  177 (202)
                      ++|+|+.+.      .++.....|...+.....       .+.|+++|+||+|+.....................++++|
T Consensus        79 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  158 (176)
T cd01881          79 LHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRELALEEGAEVVPIS  158 (176)
T ss_pred             EEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCCEEEEe
Confidence            999999987      467777777777665432       4789999999999876544333222344444567799999


Q ss_pred             cCCCCCHHHHHHHHHHHc
Q 028884          178 AKTADNINQLFEEIAKRL  195 (202)
Q Consensus       178 ~~~~~~i~~~~~~l~~~i  195 (202)
                      ++++.|+.++++++.+.+
T Consensus       159 a~~~~gl~~l~~~l~~~~  176 (176)
T cd01881         159 AKTEEGLDELIRAIYELL  176 (176)
T ss_pred             hhhhcCHHHHHHHHHhhC
Confidence            999999999999997653

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=99.89  E-value=1.1e-22  Score=136.43  Aligned_cols=114  Identities=32%  Similarity=0.649  Sum_probs=83.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCC-C-CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFD-P-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      ||+|+|+.|+|||||+++|.+.... . ......+......... .......+.+||++|.+.+...+...+..+|++|+
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~il   79 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIV-VDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVIL   79 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEE-ETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEE
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEE-ecCCceEEEEEecCccceecccccchhhcCcEEEE
Confidence            7999999999999999999998875 1 1222223333322333 33443569999999999888877777999999999


Q ss_pred             EEeCCChhHHHHHHH---HHHHHHHcCCCCCeEEEEEeCCC
Q 028884          113 VYDITSPDSFNKAQY---WVKELQKHGSPDIVMALVGNKAD  150 (202)
Q Consensus       113 v~d~~~~~s~~~~~~---~~~~i~~~~~~~~p~ivv~nK~D  150 (202)
                      |||++++.++..+..   |+..+... ..+.|++||+||.|
T Consensus        80 v~D~s~~~s~~~~~~~~~~l~~~~~~-~~~~piilv~nK~D  119 (119)
T PF08477_consen   80 VYDLSDPESLEYLSQLLKWLKNIRKR-DKNIPIILVGNKSD  119 (119)
T ss_dssp             EEECCGHHHHHHHHHHHHHHHHHHHH-SSCSEEEEEEE-TC
T ss_pred             EEcCCChHHHHHHHHHHHHHHHHHcc-CCCCCEEEEEeccC
Confidence            999999999988744   45555554 45699999999998

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.

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

Probab=99.89  E-value=5.7e-22  Score=138.82  Aligned_cols=146  Identities=21%  Similarity=0.245  Sum_probs=103.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh--------cccccc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA--------LAPLYY  104 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~  104 (202)
                      ++|+++|++|+|||||++++.+..... ...+..+.......+...+   ..+.+||+||...+..        .....+
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~   78 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGG---IPVRLIDTAGIRETEDEIEKIGIERAREAI   78 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeCC---EEEEEEECCCcCCCcchHHHHHHHHHHHHH
Confidence            589999999999999999999875422 1122233333233333322   5789999999654321        123456


Q ss_pred             cCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCH
Q 028884          105 RGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       105 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i  184 (202)
                      ..+|++++|+|++++.+......+..      ..+.|+++|+||+|+......       .......+++++|++++.|+
T Consensus        79 ~~~~~~v~v~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~D~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v  145 (157)
T cd04164          79 EEADLVLFVIDASRGLDEEDLEILEL------PADKPIIVVLNKSDLLPDSEL-------LSLLAGKPIIAISAKTGEGL  145 (157)
T ss_pred             hhCCEEEEEEECCCCCCHHHHHHHHh------hcCCCEEEEEEchhcCCcccc-------ccccCCCceEEEECCCCCCH
Confidence            78999999999998766555433222      347899999999998764433       34455678999999999999


Q ss_pred             HHHHHHHHHHc
Q 028884          185 NQLFEEIAKRL  195 (202)
Q Consensus       185 ~~~~~~l~~~i  195 (202)
                      ++++++|.+.+
T Consensus       146 ~~l~~~l~~~~  156 (157)
T cd04164         146 DELKEALLELA  156 (157)
T ss_pred             HHHHHHHHHhh
Confidence            99999998765

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.

>cd01889 SelB_euk SelB subfamily

Probab=99.89  E-value=2.9e-22  Score=145.32  Aligned_cols=161  Identities=16%  Similarity=0.115  Sum_probs=103.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC----CCCCC---CccccceeEEEEEEEec-----------CCcEEEEEEEeCCChhh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG----QFDPT---SKVTVGASFLSQTIALQ-----------DSTTVKFEIWDTAGQER   95 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~----~~~~~---~~~~~~~~~~~~~~~~~-----------~~~~~~~~i~D~~G~~~   95 (202)
                      +||+++|++++|||||+++|+..    .+...   .....+.......+.+.           ....+.+.+|||||+..
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~   80 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHAS   80 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHH
Confidence            58999999999999999999973    11111   11122222222222222           12247899999999876


Q ss_pred             hhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC--ChHHHHHHHH------
Q 028884           96 YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV--PAQDGIEYAE------  167 (202)
Q Consensus        96 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~------  167 (202)
                      +..........+|++++|+|++++........+. . ...  .+.|+++++||+|+......  ..++..+...      
T Consensus        81 ~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~-~-~~~--~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~  156 (192)
T cd01889          81 LIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLV-I-GEI--LCKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKT  156 (192)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHH-H-HHH--cCCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            5443334456789999999999754333322221 1 121  25689999999998643221  1122222111      


Q ss_pred             -HcCCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          168 -KNGMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       168 -~~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                       ..+.+++++|++++.|+.+++++|.+.+..+
T Consensus       157 ~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~~~  188 (192)
T cd01889         157 RFKNSPIIPVSAKPGGGEAELGKDLNNLIVLP  188 (192)
T ss_pred             CcCCCCEEEEeccCCCCHHHHHHHHHhccccc
Confidence             1356799999999999999999999998765

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

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.89  E-value=1.3e-21  Score=162.35  Aligned_cols=161  Identities=22%  Similarity=0.236  Sum_probs=116.7

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCC-------CCCCCcc------ccceeEEE--EEEEec--CCcEEEEEEEeCCChhh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQ-------FDPTSKV------TVGASFLS--QTIALQ--DSTTVKFEIWDTAGQER   95 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~-------~~~~~~~------~~~~~~~~--~~~~~~--~~~~~~~~i~D~~G~~~   95 (202)
                      .-+|+++|+.++|||||+++|+...       +...+..      ..+..+..  ..+.+.  ++..+.+.+|||||+..
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~d   82 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVD   82 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHH
Confidence            4689999999999999999998742       1111111      11222222  222222  45558999999999999


Q ss_pred             hhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC---e
Q 028884           96 YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM---F  172 (202)
Q Consensus        96 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~---~  172 (202)
                      |...+..+++.+|++|+|+|++++.+.+....|...+.    .++|+++|+||+|+....  ......++....++   .
T Consensus        83 F~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViNKiDl~~~~--~~~~~~el~~~lg~~~~~  156 (595)
T TIGR01393        83 FSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVINKIDLPSAD--PERVKKEIEEVIGLDASE  156 (595)
T ss_pred             HHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEECcCCCccC--HHHHHHHHHHHhCCCcce
Confidence            99889999999999999999999766666666654442    367899999999986432  12223344444454   4


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          173 FIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       173 ~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      ++++||++|.|++++|++|.+.+..+.
T Consensus       157 vi~vSAktG~GI~~Lle~I~~~lp~p~  183 (595)
T TIGR01393       157 AILASAKTGIGIEEILEAIVKRVPPPK  183 (595)
T ss_pred             EEEeeccCCCCHHHHHHHHHHhCCCCC
Confidence            899999999999999999999998764

LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.89  E-value=1e-21  Score=160.00  Aligned_cols=155  Identities=21%  Similarity=0.211  Sum_probs=108.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChh--------hhhhcccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE--------RYAALAPL  102 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~  102 (202)
                      ...+|+|+|.+|+|||||+|+|.+..... ...+..+.+.......+.+   ..+.+|||||.+        .+...+..
T Consensus        37 ~~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~---~~~~l~DT~G~~~~~~~~~~~~~~~~~~  113 (472)
T PRK03003         37 PLPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNG---RRFTVVDTGGWEPDAKGLQASVAEQAEV  113 (472)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECC---cEEEEEeCCCcCCcchhHHHHHHHHHHH
Confidence            34789999999999999999999876432 2333344444444444433   468899999965        23445566


Q ss_pred             cccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCC
Q 028884          103 YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD  182 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  182 (202)
                      +++.+|++|+|+|++++.++.. ..+...++.   .++|+++|+||+|+....   .+....+....+ .++++||++|.
T Consensus       114 ~~~~aD~il~VvD~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~~~~---~~~~~~~~~g~~-~~~~iSA~~g~  185 (472)
T PRK03003        114 AMRTADAVLFVVDATVGATATD-EAVARVLRR---SGKPVILAANKVDDERGE---ADAAALWSLGLG-EPHPVSALHGR  185 (472)
T ss_pred             HHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCCccc---hhhHHHHhcCCC-CeEEEEcCCCC
Confidence            7889999999999998755432 334444443   378999999999986432   112222222233 35799999999


Q ss_pred             CHHHHHHHHHHHcCC
Q 028884          183 NINQLFEEIAKRLPR  197 (202)
Q Consensus       183 ~i~~~~~~l~~~i~~  197 (202)
                      |++++|++|++.+.+
T Consensus       186 gi~eL~~~i~~~l~~  200 (472)
T PRK03003        186 GVGDLLDAVLAALPE  200 (472)
T ss_pred             CcHHHHHHHHhhccc
Confidence            999999999998865

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.89  E-value=5.1e-22  Score=161.75  Aligned_cols=158  Identities=23%  Similarity=0.228  Sum_probs=109.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCCh----------hhhhhcc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ----------ERYAALA  100 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~  100 (202)
                      ..++|+++|.+|+|||||+|+|++..... ...+..+.+.....+.+.+   ..+.+|||||.          +.+..+.
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~---~~~~l~DTaG~~~~~~~~~~~e~~~~~~  286 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGG---KTWRFVDTAGLRRRVKQASGHEYYASLR  286 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECC---EEEEEEECCCccccccccchHHHHHHHH
Confidence            46999999999999999999999876432 2233334444344444433   35789999994          3333332


Q ss_pred             -cccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC--hHHHHH-HHHHcCCeEEEe
Q 028884          101 -PLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP--AQDGIE-YAEKNGMFFIET  176 (202)
Q Consensus       101 -~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~-~~~~~~~~~~~~  176 (202)
                       ..+++.+|++|+|+|++++.++..+. ++..+..   .++|+++|+||+|+.+.....  ..+... +.....++++++
T Consensus       287 ~~~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~~---~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~  362 (472)
T PRK03003        287 THAAIEAAEVAVVLIDASEPISEQDQR-VLSMVIE---AGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNI  362 (472)
T ss_pred             HHHHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEEE
Confidence             34578899999999999987776653 3444433   478999999999986532111  111111 122234679999


Q ss_pred             ccCCCCCHHHHHHHHHHHcC
Q 028884          177 SAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       177 s~~~~~~i~~~~~~l~~~i~  196 (202)
                      ||++|.|++++|+.+.+.+.
T Consensus       363 SAk~g~gv~~lf~~i~~~~~  382 (472)
T PRK03003        363 SAKTGRAVDKLVPALETALE  382 (472)
T ss_pred             ECCCCCCHHHHHHHHHHHHH
Confidence            99999999999999988764

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.89  E-value=1e-21  Score=157.91  Aligned_cols=153  Identities=19%  Similarity=0.210  Sum_probs=110.6

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh--------cc
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA--------LA  100 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~  100 (202)
                      ....++|+++|.+|+|||||+|+|++..... ...+..+.+.....+.+.+   ..+.+|||||...+..        ..
T Consensus       200 ~~~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g---~~v~l~DTaG~~~~~~~ie~~gi~~~  276 (442)
T TIGR00450       200 LDDGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNG---ILIKLLDTAGIREHADFVERLGIEKS  276 (442)
T ss_pred             hhcCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECC---EEEEEeeCCCcccchhHHHHHHHHHH
Confidence            3457899999999999999999999875422 2233334444444555533   5689999999754332        22


Q ss_pred             cccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCC
Q 028884          101 PLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT  180 (202)
Q Consensus       101 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~  180 (202)
                      ..+++.+|++++|+|++++.++...  |+..+.   ..++|+++|+||+|+.+.      +...++...+.+++.+|+++
T Consensus       277 ~~~~~~aD~il~V~D~s~~~s~~~~--~l~~~~---~~~~piIlV~NK~Dl~~~------~~~~~~~~~~~~~~~vSak~  345 (442)
T TIGR00450       277 FKAIKQADLVIYVLDASQPLTKDDF--LIIDLN---KSKKPFILVLNKIDLKIN------SLEFFVSSKVLNSSNLSAKQ  345 (442)
T ss_pred             HHHHhhCCEEEEEEECCCCCChhHH--HHHHHh---hCCCCEEEEEECccCCCc------chhhhhhhcCCceEEEEEec
Confidence            4567889999999999998776654  555543   246899999999998543      12334556677899999998


Q ss_pred             CCCHHHHHHHHHHHcCC
Q 028884          181 ADNINQLFEEIAKRLPR  197 (202)
Q Consensus       181 ~~~i~~~~~~l~~~i~~  197 (202)
                       .|++++|+.|.+.+.+
T Consensus       346 -~gI~~~~~~L~~~i~~  361 (442)
T TIGR00450       346 -LKIKALVDLLTQKINA  361 (442)
T ss_pred             -CCHHHHHHHHHHHHHH
Confidence             6899999888887654

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.88  E-value=2.9e-21  Score=153.67  Aligned_cols=159  Identities=22%  Similarity=0.177  Sum_probs=111.0

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh----hhhc---ccccccC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER----YAAL---APLYYRG  106 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~---~~~~~~~  106 (202)
                      ..|+++|.|++||||||+++++.+......+..+.....-.+.+.++  ..+.+||+||..+    ...+   +...+..
T Consensus       159 adVglVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~~~--~~~~laD~PGliega~~~~gLg~~fLrhier  236 (424)
T PRK12297        159 ADVGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETDDG--RSFVMADIPGLIEGASEGVGLGHQFLRHIER  236 (424)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHcCCCccccCCcceeceEEEEEEEeCC--ceEEEEECCCCcccccccchHHHHHHHHHhh
Confidence            48999999999999999999986633222222222222222333322  4799999999632    1112   2233556


Q ss_pred             ccEEEEEEeCCCh---hHHHHHHHHHHHHHHcC--CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCC
Q 028884          107 AAVAVVVYDITSP---DSFNKAQYWVKELQKHG--SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTA  181 (202)
Q Consensus       107 ~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~  181 (202)
                      ++++|+|+|+++.   +.++....|.+.+....  ..++|++||+||+|+...    .+....+++..+.+++++||+++
T Consensus       237 ~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~----~e~l~~l~~~l~~~i~~iSA~tg  312 (424)
T PRK12297        237 TRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPEA----EENLEEFKEKLGPKVFPISALTG  312 (424)
T ss_pred             CCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcCC----HHHHHHHHHHhCCcEEEEeCCCC
Confidence            8999999999854   55677777777776642  247899999999997421    23445566666678999999999


Q ss_pred             CCHHHHHHHHHHHcCCC
Q 028884          182 DNINQLFEEIAKRLPRP  198 (202)
Q Consensus       182 ~~i~~~~~~l~~~i~~~  198 (202)
                      .|+++++++|.+.+.+.
T Consensus       313 eGI~eL~~~L~~~l~~~  329 (424)
T PRK12297        313 QGLDELLYAVAELLEET  329 (424)
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            99999999999887654

>PRK11058 GTPase HflX; Provisional

Probab=99.88  E-value=1.5e-21  Score=156.03  Aligned_cols=156  Identities=21%  Similarity=0.208  Sum_probs=110.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh---------hhhcccccc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER---------YAALAPLYY  104 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~  104 (202)
                      .+|+++|.+|+|||||+|+|.+........+..+.+.....+.+.+..  .+.+|||+|..+         |.. +...+
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~~--~~~l~DTaG~~r~lp~~lve~f~~-tl~~~  274 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADVG--ETVLADTVGFIRHLPHDLVAAFKA-TLQET  274 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCCC--eEEEEecCcccccCCHHHHHHHHH-HHHHh
Confidence            689999999999999999999876543333344444444455554433  678999999732         222 12346


Q ss_pred             cCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCe-EEEeccCCCCC
Q 028884          105 RGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMF-FIETSAKTADN  183 (202)
Q Consensus       105 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~s~~~~~~  183 (202)
                      +.+|++|+|+|++++.++..+..|...+......++|+++|+||+|+.....   ... . ....+.+ ++.+||++|.|
T Consensus       275 ~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~~---~~~-~-~~~~~~~~~v~ISAktG~G  349 (426)
T PRK11058        275 RQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDFE---PRI-D-RDEENKPIRVWLSAQTGAG  349 (426)
T ss_pred             hcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCchh---HHH-H-HHhcCCCceEEEeCCCCCC
Confidence            7899999999999988777766555555554445789999999999864311   111 1 1123444 58899999999


Q ss_pred             HHHHHHHHHHHcCC
Q 028884          184 INQLFEEIAKRLPR  197 (202)
Q Consensus       184 i~~~~~~l~~~i~~  197 (202)
                      +++++++|.+.+..
T Consensus       350 IdeL~e~I~~~l~~  363 (426)
T PRK11058        350 IPLLFQALTERLSG  363 (426)
T ss_pred             HHHHHHHHHHHhhh
Confidence            99999999998854

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.88  E-value=5.5e-22  Score=160.18  Aligned_cols=150  Identities=25%  Similarity=0.281  Sum_probs=109.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhc--------cc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAAL--------AP  101 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~  101 (202)
                      ...++|+++|.+|+|||||+|+|.+..... ...+..+.+.....+.+.+   ..+.+|||||...+...        ..
T Consensus       213 ~~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g---~~i~l~DT~G~~~~~~~ie~~gi~~~~  289 (449)
T PRK05291        213 REGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDG---IPLRLIDTAGIRETDDEVEKIGIERSR  289 (449)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECC---eEEEEEeCCCCCCCccHHHHHHHHHHH
Confidence            345899999999999999999999876422 2233334444444555533   57899999997643221        23


Q ss_pred             ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCC
Q 028884          102 LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTA  181 (202)
Q Consensus       102 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~  181 (202)
                      .+++.+|++++|+|++++.+++....|..      ..+.|+++|+||+|+.+.....        .....+++++|+++|
T Consensus       290 ~~~~~aD~il~VvD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~~~~~~~--------~~~~~~~i~iSAktg  355 (449)
T PRK05291        290 EAIEEADLVLLVLDASEPLTEEDDEILEE------LKDKPVIVVLNKADLTGEIDLE--------EENGKPVIRISAKTG  355 (449)
T ss_pred             HHHHhCCEEEEEecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhccccchhh--------hccCCceEEEEeeCC
Confidence            46788999999999999877665444332      3468999999999986543221        334567999999999


Q ss_pred             CCHHHHHHHHHHHcCC
Q 028884          182 DNINQLFEEIAKRLPR  197 (202)
Q Consensus       182 ~~i~~~~~~l~~~i~~  197 (202)
                      .|+++++++|.+.+..
T Consensus       356 ~GI~~L~~~L~~~l~~  371 (449)
T PRK05291        356 EGIDELREAIKELAFG  371 (449)
T ss_pred             CCHHHHHHHHHHHHhh
Confidence            9999999999998754

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.88  E-value=2.1e-21  Score=160.40  Aligned_cols=156  Identities=14%  Similarity=0.159  Sum_probs=112.9

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ...+..+|+++|++++|||||+++|.+..+.....+..+.+.....+.+.++.  .+.+|||||++.|..++...+..+|
T Consensus        83 ~~~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~~--~i~~iDTPGhe~F~~~r~rga~~aD  160 (587)
T TIGR00487        83 LVERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDGK--MITFLDTPGHEAFTSMRARGAKVTD  160 (587)
T ss_pred             cccCCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCCc--EEEEEECCCCcchhhHHHhhhccCC
Confidence            34567899999999999999999999877665544445555544445544332  7899999999999999888899999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc---------CCeEEEeccC
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN---------GMFFIETSAK  179 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~---------~~~~~~~s~~  179 (202)
                      ++|+|+|++++...+.. ..+...   ...++|+++++||+|+....   .+.........         ..+++++||+
T Consensus       161 iaILVVda~dgv~~qT~-e~i~~~---~~~~vPiIVviNKiDl~~~~---~e~v~~~L~~~g~~~~~~~~~~~~v~iSAk  233 (587)
T TIGR00487       161 IVVLVVAADDGVMPQTI-EAISHA---KAANVPIIVAINKIDKPEAN---PDRVKQELSEYGLVPEDWGGDTIFVPVSAL  233 (587)
T ss_pred             EEEEEEECCCCCCHhHH-HHHHHH---HHcCCCEEEEEECcccccCC---HHHHHHHHHHhhhhHHhcCCCceEEEEECC
Confidence            99999999875322222 222222   23478999999999986422   22222222222         2469999999


Q ss_pred             CCCCHHHHHHHHHH
Q 028884          180 TADNINQLFEEIAK  193 (202)
Q Consensus       180 ~~~~i~~~~~~l~~  193 (202)
                      +|.|+++++++|..
T Consensus       234 tGeGI~eLl~~I~~  247 (587)
T TIGR00487       234 TGDGIDELLDMILL  247 (587)
T ss_pred             CCCChHHHHHhhhh
Confidence            99999999999865

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.

>cd01894 EngA1 EngA1 subfamily

Probab=99.88  E-value=8.4e-22  Score=138.03  Aligned_cols=147  Identities=23%  Similarity=0.168  Sum_probs=99.2

Q ss_pred             EEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh--------cccccccCc
Q 028884           37 VLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA--------LAPLYYRGA  107 (202)
Q Consensus        37 ~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~~  107 (202)
                      +++|.+|+|||||+++|.+..... ...+..+...........+   ..+.+|||||...+..        .+...++.+
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~---~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~   77 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEWGG---REFILIDTGGIEPDDEGISKEIREQAELAIEEA   77 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEECC---eEEEEEECCCCCCchhHHHHHHHHHHHHHHHhC
Confidence            479999999999999999864221 1122222223333333322   5799999999776432        334567889


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC-eEEEeccCCCCCHHH
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM-FFIETSAKTADNINQ  186 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~s~~~~~~i~~  186 (202)
                      |++++|+|..++.+.... .+...+..   .+.|+++|+||+|+.+....     .......+. +++++|++++.|+++
T Consensus        78 d~ii~v~d~~~~~~~~~~-~~~~~~~~---~~~piiiv~nK~D~~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~gv~~  148 (157)
T cd01894          78 DVILFVVDGREGLTPADE-EIAKYLRK---SKKPVILVVNKVDNIKEEDE-----AAEFYSLGFGEPIPISAEHGRGIGD  148 (157)
T ss_pred             CEEEEEEeccccCCccHH-HHHHHHHh---cCCCEEEEEECcccCChHHH-----HHHHHhcCCCCeEEEecccCCCHHH
Confidence            999999999876443332 22233332   25899999999998654322     222333454 689999999999999


Q ss_pred             HHHHHHHHc
Q 028884          187 LFEEIAKRL  195 (202)
Q Consensus       187 ~~~~l~~~i  195 (202)
                      ++++|++.+
T Consensus       149 l~~~l~~~~  157 (157)
T cd01894         149 LLDAILELL  157 (157)
T ss_pred             HHHHHHhhC
Confidence            999998764

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.

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

Probab=99.88  E-value=1.4e-21  Score=142.76  Aligned_cols=164  Identities=18%  Similarity=0.156  Sum_probs=104.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCC---CCccccceeEEEEEEEec------------------------C--C----
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDP---TSKVTVGASFLSQTIALQ------------------------D--S----   80 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~------------------------~--~----   80 (202)
                      ++|+++|+.|+|||||++.+.+...+.   ......+.........+.                        .  +    
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            579999999999999999997642111   111111111111111110                        0  1    


Q ss_pred             cEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC--C
Q 028884           81 TTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV--P  158 (202)
Q Consensus        81 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~--~  158 (202)
                      ....+.|||+||++.+...+...+..+|++++|+|++++.........+..+....  ..|+++|+||+|+......  .
T Consensus        81 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~~--~~~iiivvNK~Dl~~~~~~~~~  158 (203)
T cd01888          81 LVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIMG--LKHIIIVQNKIDLVKEEQALEN  158 (203)
T ss_pred             cccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHcC--CCcEEEEEEchhccCHHHHHHH
Confidence            01578999999999888877778888999999999997421112222223333221  2468999999998653211  1


Q ss_pred             hHHHHHHHHH---cCCeEEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          159 AQDGIEYAEK---NGMFFIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       159 ~~~~~~~~~~---~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      .++...+...   ...+++++||++|.|+++++++|.+.+.++.
T Consensus       159 ~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l~~~~  202 (203)
T cd01888         159 YEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKIPTPP  202 (203)
T ss_pred             HHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhCCCCC
Confidence            1223333332   2567999999999999999999999998764

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

>COG1159 Era GTPase [General function prediction only]

Probab=99.88  E-value=2.3e-21  Score=144.13  Aligned_cols=163  Identities=20%  Similarity=0.148  Sum_probs=117.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChh--------hhhhcccc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE--------RYAALAPL  102 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~  102 (202)
                      .+.--|+++|.|++|||||+|++++.+.........++.-....+...++  .++.++||||.-        .+......
T Consensus         4 ~ksGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~~--~QiIfvDTPGih~pk~~l~~~m~~~a~~   81 (298)
T COG1159           4 FKSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTDN--AQIIFVDTPGIHKPKHALGELMNKAARS   81 (298)
T ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcCC--ceEEEEeCCCCCCcchHHHHHHHHHHHH
Confidence            34567999999999999999999999988777766666555555555443  589999999932        22334455


Q ss_pred             cccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc-CCeEEEeccCCC
Q 028884          103 YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN-GMFFIETSAKTA  181 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~s~~~~  181 (202)
                      .+..+|+++||+|++.+... .....++.++.   .+.|+++++||.|...+..........+.... ...++++||++|
T Consensus        82 sl~dvDlilfvvd~~~~~~~-~d~~il~~lk~---~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g  157 (298)
T COG1159          82 ALKDVDLILFVVDADEGWGP-GDEFILEQLKK---TKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKG  157 (298)
T ss_pred             HhccCcEEEEEEeccccCCc-cHHHHHHHHhh---cCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeecccc
Confidence            67889999999999986322 22223333443   36799999999998776543222223333232 346999999999


Q ss_pred             CCHHHHHHHHHHHcCCCC
Q 028884          182 DNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       182 ~~i~~~~~~l~~~i~~~~  199 (202)
                      .|++.+.+.+.+++.+-.
T Consensus       158 ~n~~~L~~~i~~~Lpeg~  175 (298)
T COG1159         158 DNVDTLLEIIKEYLPEGP  175 (298)
T ss_pred             CCHHHHHHHHHHhCCCCC
Confidence            999999999999998754

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.88  E-value=1.6e-21  Score=137.00  Aligned_cols=139  Identities=17%  Similarity=0.236  Sum_probs=97.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCCh-----hhhhhcccccccCccE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ-----ERYAALAPLYYRGAAV  109 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~-----~~~~~~~~~~~~~~d~  109 (202)
                      +|+++|.+|+|||||++++.+... . ...       ...+.+...     .+||+||.     +.++.+. ..++.+|+
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~~-~-~~~-------~~~v~~~~~-----~~iDtpG~~~~~~~~~~~~~-~~~~~ad~   67 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNYT-L-ARK-------TQAVEFNDK-----GDIDTPGEYFSHPRWYHALI-TTLQDVDM   67 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCc-c-Ccc-------ceEEEECCC-----CcccCCccccCCHHHHHHHH-HHHhcCCE
Confidence            799999999999999999886431 1 111       111122111     26999996     2223322 34678999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC--eEEEeccCCCCCHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM--FFIETSAKTADNINQL  187 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~--~~~~~s~~~~~~i~~~  187 (202)
                      +++|+|+++..++  +..|+..+    ..+.|+++++||+|+...   ..+...+++...+.  +++++|++++.|++++
T Consensus        68 il~v~d~~~~~s~--~~~~~~~~----~~~~~ii~v~nK~Dl~~~---~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi~~l  138 (158)
T PRK15467         68 LIYVHGANDPESR--LPAGLLDI----GVSKRQIAVISKTDMPDA---DVAATRKLLLETGFEEPIFELNSHDPQSVQQL  138 (158)
T ss_pred             EEEEEeCCCcccc--cCHHHHhc----cCCCCeEEEEEccccCcc---cHHHHHHHHHHcCCCCCEEEEECCCccCHHHH
Confidence            9999999988654  22343332    236789999999998542   34555666667664  8999999999999999


Q ss_pred             HHHHHHHcCC
Q 028884          188 FEEIAKRLPR  197 (202)
Q Consensus       188 ~~~l~~~i~~  197 (202)
                      |++|.+.+..
T Consensus       139 ~~~l~~~~~~  148 (158)
T PRK15467        139 VDYLASLTKQ  148 (158)
T ss_pred             HHHHHHhchh
Confidence            9999888754

>PRK00089 era GTPase Era; Reviewed

Probab=99.88  E-value=4.1e-21  Score=147.87  Aligned_cols=161  Identities=21%  Similarity=0.186  Sum_probs=107.8

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhh--------hhccccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY--------AALAPLY  103 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~  103 (202)
                      +.-.|+|+|.+|+|||||+|+|++...........++......+... +. ..+.++||||....        .......
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~~~-~~-~qi~~iDTPG~~~~~~~l~~~~~~~~~~~   81 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTE-DD-AQIIFVDTPGIHKPKRALNRAMNKAAWSS   81 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccccEEEEEEc-CC-ceEEEEECCCCCCchhHHHHHHHHHHHHH
Confidence            45679999999999999999999987654433332222222222222 22 68999999995321        2233445


Q ss_pred             ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc-CCeEEEeccCCCC
Q 028884          104 YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN-GMFFIETSAKTAD  182 (202)
Q Consensus       104 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~s~~~~~  182 (202)
                      +..+|++++|+|++++.+. .....+..+.   ..+.|+++|+||+|+.............+.... ...++++|++++.
T Consensus        82 ~~~~D~il~vvd~~~~~~~-~~~~i~~~l~---~~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~  157 (292)
T PRK00089         82 LKDVDLVLFVVDADEKIGP-GDEFILEKLK---KVKTPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKGD  157 (292)
T ss_pred             HhcCCEEEEEEeCCCCCCh-hHHHHHHHHh---hcCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCCC
Confidence            7789999999999984221 1222233333   336899999999998743232333344444433 3569999999999


Q ss_pred             CHHHHHHHHHHHcCCC
Q 028884          183 NINQLFEEIAKRLPRP  198 (202)
Q Consensus       183 ~i~~~~~~l~~~i~~~  198 (202)
                      |+++++++|.+.+.+.
T Consensus       158 gv~~L~~~L~~~l~~~  173 (292)
T PRK00089        158 NVDELLDVIAKYLPEG  173 (292)
T ss_pred             CHHHHHHHHHHhCCCC
Confidence            9999999999998654

>cd04163 Era Era subfamily

Probab=99.87  E-value=6e-21  Score=134.67  Aligned_cols=157  Identities=22%  Similarity=0.186  Sum_probs=103.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh--------hcccccc
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA--------ALAPLYY  104 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~~~  104 (202)
                      ..+|+++|.+|+|||||++++.+.....................  ......+.+||+||.....        ......+
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   80 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIY--TDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSAL   80 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCceeceEEEEE--EcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHH
Confidence            57899999999999999999998754333222222222112221  1223689999999954321        2334457


Q ss_pred             cCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc-CCeEEEeccCCCCC
Q 028884          105 RGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN-GMFFIETSAKTADN  183 (202)
Q Consensus       105 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~s~~~~~~  183 (202)
                      ..+|++++|+|++++.+. ....++..+...   +.|+++|+||+|+........+....+.... ..+++.+|++++.+
T Consensus        81 ~~~d~i~~v~d~~~~~~~-~~~~~~~~~~~~---~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~  156 (168)
T cd04163          81 KDVDLVLFVVDASEPIGE-GDEFILELLKKS---KTPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPISALKGEN  156 (168)
T ss_pred             HhCCEEEEEEECCCccCc-hHHHHHHHHHHh---CCCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEEeccCCC
Confidence            789999999999987211 112233334332   5789999999998643333333333444434 36799999999999


Q ss_pred             HHHHHHHHHHHc
Q 028884          184 INQLFEEIAKRL  195 (202)
Q Consensus       184 i~~~~~~l~~~i  195 (202)
                      ++++++.|.+.+
T Consensus       157 ~~~l~~~l~~~~  168 (168)
T cd04163         157 VDELLEEIVKYL  168 (168)
T ss_pred             hHHHHHHHHhhC
Confidence            999999998764

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.87  E-value=5.9e-21  Score=138.79  Aligned_cols=162  Identities=22%  Similarity=0.174  Sum_probs=105.9

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCCh----------hhhh
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ----------ERYA   97 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~   97 (202)
                      .+....++|+++|.+|+|||||+++|.+..+.....++.+..........   . ..+.+||+||.          +.+.
T Consensus        19 ~~~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~-~~l~l~DtpG~~~~~~~~~~~~~~~   94 (196)
T PRK00454         19 LPPDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---N-DKLRLVDLPGYGYAKVSKEEKEKWQ   94 (196)
T ss_pred             CCCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---C-CeEEEeCCCCCCCcCCCchHHHHHH
Confidence            34456799999999999999999999987643333333333322222221   1 57999999993          3444


Q ss_pred             hcccccccC---ccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC--hHHHHHHHHHcCCe
Q 028884           98 ALAPLYYRG---AAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP--AQDGIEYAEKNGMF  172 (202)
Q Consensus        98 ~~~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~~~~~  172 (202)
                      .+...+++.   .+++++++|.+.+.+.... .+...+.   ..+.|+++++||+|+.......  .+...........+
T Consensus        95 ~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~-~i~~~l~---~~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~~  170 (196)
T PRK00454         95 KLIEEYLRTRENLKGVVLLIDSRHPLKELDL-QMIEWLK---EYGIPVLIVLTKADKLKKGERKKQLKKVRKALKFGDDE  170 (196)
T ss_pred             HHHHHHHHhCccceEEEEEEecCCCCCHHHH-HHHHHHH---HcCCcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCCc
Confidence            444444544   4678888998876433221 1222232   2368899999999986543221  12233333333678


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          173 FIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       173 ~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      ++++|++++.|++++++.|.+.+.+
T Consensus       171 ~~~~Sa~~~~gi~~l~~~i~~~~~~  195 (196)
T PRK00454        171 VILFSSLKKQGIDELRAAIAKWLAE  195 (196)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            9999999999999999999988765

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=99.87  E-value=1.5e-21  Score=130.95  Aligned_cols=168  Identities=23%  Similarity=0.497  Sum_probs=142.2

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ++.-.++|.++|++..|||||+-+|.++.++..+..+.+.....+.+.+.+.. +.+.+||..|++++..+.+...+.+-
T Consensus        16 ~n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~-IsfSIwdlgG~~~~~n~lPiac~dsv   94 (205)
T KOG1673|consen   16 SNLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTD-ISFSIWDLGGQREFINMLPIACKDSV   94 (205)
T ss_pred             ccceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceE-EEEEEEecCCcHhhhccCceeecCcE
Confidence            45568999999999999999999999999888888888888888888776544 89999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC-----CCCChHHHHHHHHHcCCeEEEeccCCCCC
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK-----REVPAQDGIEYAEKNGMFFIETSAKTADN  183 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~-----~~~~~~~~~~~~~~~~~~~~~~s~~~~~~  183 (202)
                      +++++||++.+.++..+..||...+......+| |+|++|.|..-.     +.....+++.+++..+.++++||+....|
T Consensus        95 aIlFmFDLt~r~TLnSi~~WY~QAr~~NktAiP-ilvGTKyD~fi~lp~e~Q~~I~~qar~YAk~mnAsL~F~Sts~sIN  173 (205)
T KOG1673|consen   95 AILFMFDLTRRSTLNSIKEWYRQARGLNKTAIP-ILVGTKYDLFIDLPPELQETISRQARKYAKVMNASLFFCSTSHSIN  173 (205)
T ss_pred             EEEEEEecCchHHHHHHHHHHHHHhccCCccce-EEeccchHhhhcCCHHHHHHHHHHHHHHHHHhCCcEEEeecccccc
Confidence            999999999999999999999998887555565 667999996321     22233456778888899999999999999


Q ss_pred             HHHHHHHHHHHcCCC
Q 028884          184 INQLFEEIAKRLPRP  198 (202)
Q Consensus       184 i~~~~~~l~~~i~~~  198 (202)
                      ++.+|..+..++-.-
T Consensus       174 v~KIFK~vlAklFnL  188 (205)
T KOG1673|consen  174 VQKIFKIVLAKLFNL  188 (205)
T ss_pred             HHHHHHHHHHHHhCC
Confidence            999999988776543

>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=99.87  E-value=1.3e-21  Score=141.45  Aligned_cols=160  Identities=21%  Similarity=0.206  Sum_probs=108.6

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC------------------ccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS------------------KVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      +.++|+++|+.++|||||+++|+........                  ....+.......+.. ......+.++|+||+
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~-~~~~~~i~~iDtPG~   80 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEK-NENNRKITLIDTPGH   80 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEB-TESSEEEEEEEESSS
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccc-cccccceeecccccc
Confidence            5789999999999999999999864321111                  112223332333331 223378999999999


Q ss_pred             hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC-ChHHHH-HHHHHc--
Q 028884           94 ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV-PAQDGI-EYAEKN--  169 (202)
Q Consensus        94 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~-~~~~~~-~~~~~~--  169 (202)
                      ..|.......+..+|++|+|+|+.++... ...+.+..+...   ++|+++|+||+|+...+.. ...+.. .+.+..  
T Consensus        81 ~~f~~~~~~~~~~~D~ailvVda~~g~~~-~~~~~l~~~~~~---~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~  156 (188)
T PF00009_consen   81 EDFIKEMIRGLRQADIAILVVDANDGIQP-QTEEHLKILREL---GIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGE  156 (188)
T ss_dssp             HHHHHHHHHHHTTSSEEEEEEETTTBSTH-HHHHHHHHHHHT---T-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTS
T ss_pred             cceeecccceecccccceeeeeccccccc-cccccccccccc---ccceEEeeeeccchhhhHHHHHHHHHHHhcccccc
Confidence            99988888889999999999999977332 234444444444   6779999999998722111 011111 222222  


Q ss_pred             ----CCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          170 ----GMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       170 ----~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                          .++++++|+++|.|+.++++.|.+.++
T Consensus       157 ~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  157 NGEEIVPVIPISALTGDGIDELLEALVELLP  187 (188)
T ss_dssp             TTTSTEEEEEEBTTTTBTHHHHHHHHHHHS-
T ss_pred             CccccceEEEEecCCCCCHHHHHHHHHHhCc
Confidence                357999999999999999999999875

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 ....

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.87  E-value=6.2e-21  Score=150.99  Aligned_cols=162  Identities=19%  Similarity=0.135  Sum_probs=110.6

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh-------hhhcccccccC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER-------YAALAPLYYRG  106 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~  106 (202)
                      ..|+++|.||+|||||+|+|++.+......+..+.....-.+.+.+.  ..+.++|+||..+       .......++..
T Consensus       160 adValVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~~~--~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~r  237 (390)
T PRK12298        160 ADVGLLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVDDE--RSFVVADIPGLIEGASEGAGLGIRFLKHLER  237 (390)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhCCcccccCCCCCccCcEEEEEEeCCC--cEEEEEeCCCccccccchhhHHHHHHHHHHh
Confidence            47999999999999999999986642222232232333333333322  3689999999642       11112235778


Q ss_pred             ccEEEEEEeCC---ChhHHHHHHHHHHHHHHcC--CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcC--CeEEEeccC
Q 028884          107 AAVAVVVYDIT---SPDSFNKAQYWVKELQKHG--SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNG--MFFIETSAK  179 (202)
Q Consensus       107 ~d~~i~v~d~~---~~~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~s~~  179 (202)
                      +|++++|+|++   +.+.++....|++.+....  ..+.|+++|+||+|+...... .+....+....+  .+++.+||+
T Consensus       238 advlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el-~~~l~~l~~~~~~~~~Vi~ISA~  316 (390)
T PRK12298        238 CRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEA-EERAKAIVEALGWEGPVYLISAA  316 (390)
T ss_pred             CCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHH-HHHHHHHHHHhCCCCCEEEEECC
Confidence            99999999988   4455666777777766542  246899999999998654322 233334444433  368999999


Q ss_pred             CCCCHHHHHHHHHHHcCCC
Q 028884          180 TADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i~~~  198 (202)
                      ++.|++++++.|.+.+.+.
T Consensus       317 tg~GIdeLl~~I~~~L~~~  335 (390)
T PRK12298        317 SGLGVKELCWDLMTFIEEN  335 (390)
T ss_pred             CCcCHHHHHHHHHHHhhhC
Confidence            9999999999999988654

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.87  E-value=5.3e-21  Score=154.68  Aligned_cols=158  Identities=19%  Similarity=0.183  Sum_probs=105.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC-ccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhc----------
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS-KVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAAL----------   99 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~----------   99 (202)
                      ...++|+++|.+++|||||+|+|++....... .+..+.+.....+...+   ..+.+|||||...+...          
T Consensus       170 ~~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~---~~~~liDT~G~~~~~~~~~~~e~~~~~  246 (429)
T TIGR03594       170 DGPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNG---KKYLLIDTAGIRRKGKVTEGVEKYSVL  246 (429)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECC---cEEEEEECCCccccccchhhHHHHHHH
Confidence            45689999999999999999999986543222 22222233233333322   37899999996433211          


Q ss_pred             -ccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHH-HH----cCCeE
Q 028884          100 -APLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYA-EK----NGMFF  173 (202)
Q Consensus       100 -~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-~~----~~~~~  173 (202)
                       ...+++.+|++|+|+|++++.+..... ++..+..   .+.|+++|+||+|+.+... ..++..... ..    ..+++
T Consensus       247 ~~~~~~~~ad~~ilV~D~~~~~~~~~~~-~~~~~~~---~~~~iiiv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~v  321 (429)
T TIGR03594       247 RTLKAIERADVVLLVLDATEGITEQDLR-IAGLILE---AGKALVIVVNKWDLVKDEK-TREEFKKELRRKLPFLDFAPI  321 (429)
T ss_pred             HHHHHHHhCCEEEEEEECCCCccHHHHH-HHHHHHH---cCCcEEEEEECcccCCCHH-HHHHHHHHHHHhcccCCCCce
Confidence             234678899999999999886655432 3333333   3689999999999872211 111222111 11    24789


Q ss_pred             EEeccCCCCCHHHHHHHHHHHcC
Q 028884          174 IETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       174 ~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      +++||++|.|+.++|+++.+.+.
T Consensus       322 i~~SA~~g~~v~~l~~~i~~~~~  344 (429)
T TIGR03594       322 VFISALTGQGVDKLLDAIDEVYE  344 (429)
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHH
Confidence            99999999999999999887654

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.

>cd01895 EngA2 EngA2 subfamily

Probab=99.87  E-value=1.2e-20  Score=134.03  Aligned_cols=155  Identities=21%  Similarity=0.196  Sum_probs=101.2

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCC-ccccceeEEEEEEEecCCcEEEEEEEeCCChhhh----------h-hcc
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTS-KVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY----------A-ALA  100 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----------~-~~~  100 (202)
                      .++|+++|.+|+|||||+++|.+....... .+..+.......+...+   ..+.+||+||....          . ...
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~iiDtpG~~~~~~~~~~~e~~~~~~~   78 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDG---KKYTLIDTAGIRRKGKVEEGIEKYSVLRT   78 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECC---eeEEEEECCCCccccchhccHHHHHHHHH
Confidence            579999999999999999999986533222 22222222222333322   45889999995432          1 111


Q ss_pred             cccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHH-HHHHc----CCeEEE
Q 028884          101 PLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIE-YAEKN----GMFFIE  175 (202)
Q Consensus       101 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~-~~~~~----~~~~~~  175 (202)
                      ...+..+|++++|+|.+++.+.... .++..+..   .+.|+++++||+|+............. .....    ..++++
T Consensus        79 ~~~~~~~d~vi~v~d~~~~~~~~~~-~~~~~~~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (174)
T cd01895          79 LKAIERADVVLLVIDATEGITEQDL-RIAGLILE---EGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVF  154 (174)
T ss_pred             HHHHhhcCeEEEEEeCCCCcchhHH-HHHHHHHh---cCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEE
Confidence            2346689999999999988665443 23333332   368999999999987653222222222 22222    367999


Q ss_pred             eccCCCCCHHHHHHHHHHH
Q 028884          176 TSAKTADNINQLFEEIAKR  194 (202)
Q Consensus       176 ~s~~~~~~i~~~~~~l~~~  194 (202)
                      +|++++.|+.++++++.+.
T Consensus       155 ~Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         155 ISALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             EeccCCCCHHHHHHHHHHh
Confidence            9999999999999998764

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.87  E-value=8e-21  Score=153.07  Aligned_cols=163  Identities=19%  Similarity=0.122  Sum_probs=107.6

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh-------hhhcccccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER-------YAALAPLYY  104 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~  104 (202)
                      -...|+|+|.|++|||||+++|.+........+..+.....-.+.+.+   ..+.+||+||...       .......++
T Consensus       158 ~~adV~LVG~PNAGKSTLln~Ls~akpkIadypfTTl~P~lGvv~~~~---~~f~laDtPGliegas~g~gLg~~fLrhi  234 (500)
T PRK12296        158 SVADVGLVGFPSAGKSSLISALSAAKPKIADYPFTTLVPNLGVVQAGD---TRFTVADVPGLIPGASEGKGLGLDFLRHI  234 (500)
T ss_pred             ccceEEEEEcCCCCHHHHHHHHhcCCccccccCcccccceEEEEEECC---eEEEEEECCCCccccchhhHHHHHHHHHH
Confidence            346899999999999999999998654332223233333333333333   5799999999521       111122346


Q ss_pred             cCccEEEEEEeCCCh----hHHHHHHHHHHHHHHcC-----------CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc
Q 028884          105 RGAAVAVVVYDITSP----DSFNKAQYWVKELQKHG-----------SPDIVMALVGNKADLHEKREVPAQDGIEYAEKN  169 (202)
Q Consensus       105 ~~~d~~i~v~d~~~~----~s~~~~~~~~~~i~~~~-----------~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~  169 (202)
                      ..+|++|+|+|+++.    +.+..+..+...+....           ....|++||+||+|+.+.... .+.........
T Consensus       235 eradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el-~e~l~~~l~~~  313 (500)
T PRK12296        235 ERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDAREL-AEFVRPELEAR  313 (500)
T ss_pred             HhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHH-HHHHHHHHHHc
Confidence            779999999999752    23444444444443321           246899999999998654322 12222333445


Q ss_pred             CCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          170 GMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       170 ~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      +++++++||+++.|+++++++|.+.+...
T Consensus       314 g~~Vf~ISA~tgeGLdEL~~~L~ell~~~  342 (500)
T PRK12296        314 GWPVFEVSAASREGLRELSFALAELVEEA  342 (500)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            78899999999999999999999887553

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

Probab=99.86  E-value=1.6e-20  Score=123.88  Aligned_cols=158  Identities=23%  Similarity=0.397  Sum_probs=122.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      .+.+|+++|..++||||++..|.-+.. ....++.+.  ....+.+.+   +.+.+||.+|++..+.+|++|+.+..++|
T Consensus        16 KE~~ilmlGLd~aGKTtiLyKLkl~~~-~~~ipTvGF--nvetVtykN---~kfNvwdvGGqd~iRplWrhYy~gtqglI   89 (180)
T KOG0071|consen   16 KEMRILMLGLDAAGKTTILYKLKLGQS-VTTIPTVGF--NVETVTYKN---VKFNVWDVGGQDKIRPLWRHYYTGTQGLI   89 (180)
T ss_pred             ccceEEEEecccCCceehhhHHhcCCC-cccccccce--eEEEEEeee---eEEeeeeccCchhhhHHHHhhccCCceEE
Confidence            379999999999999999999987653 333444444  344455445   78999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHH-cCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH-----cCCeEEEeccCCCCCHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK-----NGMFFIETSAKTADNIN  185 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~s~~~~~~i~  185 (202)
                      ||+|..+.+..++.+..+..+.. .+..+.|++|.+||.|++...  ..+++..+...     ...-+.++++.+|.++.
T Consensus        90 FV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~--~pqei~d~leLe~~r~~~W~vqp~~a~~gdgL~  167 (180)
T KOG0071|consen   90 FVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAM--KPQEIQDKLELERIRDRNWYVQPSCALSGDGLK  167 (180)
T ss_pred             EEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCccccccc--CHHHHHHHhccccccCCccEeeccccccchhHH
Confidence            99999998888888766665543 356689999999999987643  33344433322     22347889999999999


Q ss_pred             HHHHHHHHHcCC
Q 028884          186 QLFEEIAKRLPR  197 (202)
Q Consensus       186 ~~~~~l~~~i~~  197 (202)
                      +-|.||...+.+
T Consensus       168 eglswlsnn~~~  179 (180)
T KOG0071|consen  168 EGLSWLSNNLKE  179 (180)
T ss_pred             HHHHHHHhhccC
Confidence            999999887764

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.86  E-value=1.6e-20  Score=155.98  Aligned_cols=162  Identities=19%  Similarity=0.202  Sum_probs=114.3

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCC--CCC-----C--------CccccceeEEEEEEEe--cCCcEEEEEEEeCCChh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQ--FDP-----T--------SKVTVGASFLSQTIAL--QDSTTVKFEIWDTAGQE   94 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~--~~~-----~--------~~~~~~~~~~~~~~~~--~~~~~~~~~i~D~~G~~   94 (202)
                      +.-+++++|+.++|||||+++|+...  ...     .        .....+.......+.+  .++..+.+.+|||||+.
T Consensus         6 ~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~   85 (600)
T PRK05433          6 NIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHV   85 (600)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcH
Confidence            45689999999999999999998631  110     0        0111222211222222  24445899999999999


Q ss_pred             hhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCe--
Q 028884           95 RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMF--  172 (202)
Q Consensus        95 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~--  172 (202)
                      .|...+..+++.+|++|+|+|++++...+....|+...    ..++|+++|+||+|+.....  .....++....++.  
T Consensus        86 dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~----~~~lpiIvViNKiDl~~a~~--~~v~~ei~~~lg~~~~  159 (600)
T PRK05433         86 DFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLAL----ENDLEIIPVLNKIDLPAADP--ERVKQEIEDVIGIDAS  159 (600)
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHH----HCCCCEEEEEECCCCCcccH--HHHHHHHHHHhCCCcc
Confidence            99988999999999999999999876555555554433    23688999999999854321  12223333334443  


Q ss_pred             -EEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          173 -FIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       173 -~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                       ++.+||++|.|+.+++++|.+.+..+.
T Consensus       160 ~vi~iSAktG~GI~~Ll~~I~~~lp~P~  187 (600)
T PRK05433        160 DAVLVSAKTGIGIEEVLEAIVERIPPPK  187 (600)
T ss_pred             eEEEEecCCCCCHHHHHHHHHHhCcccc
Confidence             899999999999999999999998764

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.86  E-value=1.8e-20  Score=155.51  Aligned_cols=158  Identities=19%  Similarity=0.158  Sum_probs=112.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC---CCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ---FDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      +.|+++|++++|||||+++|.+..   +......+.+.+.....+.+.+   ..+.+||+||++.|.......+.++|++
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~---~~v~~iDtPGhe~f~~~~~~g~~~aD~a   77 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD---YRLGFIDVPGHEKFISNAIAGGGGIDAA   77 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC---EEEEEEECCCHHHHHHHHHhhhccCCEE
Confidence            478999999999999999999743   2233334455555554555443   6899999999999988888888999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCCCCCC--ChHHHHHHHHHc----CCeEEEeccCCCCC
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEKREV--PAQDGIEYAEKN----GMFFIETSAKTADN  183 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~~~~~--~~~~~~~~~~~~----~~~~~~~s~~~~~~  183 (202)
                      ++|+|++++.. .+..+.+..+...   ++| ++||+||+|+.+....  ..++...+....    +++++++|+++|.|
T Consensus        78 ILVVDa~~G~~-~qT~ehl~il~~l---gi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG~G  153 (581)
T TIGR00475        78 LLVVDADEGVM-TQTGEHLAVLDLL---GIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAKTGQG  153 (581)
T ss_pred             EEEEECCCCCc-HHHHHHHHHHHHc---CCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCCCCCC
Confidence            99999998421 1222333333332   566 9999999998754322  122344444443    47899999999999


Q ss_pred             HHHHHHHHHHHcCCC
Q 028884          184 INQLFEEIAKRLPRP  198 (202)
Q Consensus       184 i~~~~~~l~~~i~~~  198 (202)
                      ++++++.|.+.+...
T Consensus       154 I~eL~~~L~~l~~~~  168 (581)
T TIGR00475       154 IGELKKELKNLLESL  168 (581)
T ss_pred             chhHHHHHHHHHHhC
Confidence            999999987766543

In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.86  E-value=1.1e-20  Score=159.74  Aligned_cols=158  Identities=16%  Similarity=0.160  Sum_probs=110.7

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ..+...|+|+|+.++|||||+++|....+.......++.......+.+.+   ..+.||||||++.|..++...+..+|+
T Consensus       287 ~~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~---~~ItfiDTPGhe~F~~m~~rga~~aDi  363 (787)
T PRK05306        287 VPRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG---GKITFLDTPGHEAFTAMRARGAQVTDI  363 (787)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC---EEEEEEECCCCccchhHHHhhhhhCCE
Confidence            56789999999999999999999988766544333344444333444432   579999999999999999888999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC-hHHHH---HHHHHc--CCeEEEeccCCCCC
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP-AQDGI---EYAEKN--GMFFIETSAKTADN  183 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~-~~~~~---~~~~~~--~~~~~~~s~~~~~~  183 (202)
                      +|+|||++++...+... .+..+   ...++|++|++||+|+....... ..+..   .+...+  .++++++||++|.|
T Consensus       364 aILVVdAddGv~~qT~e-~i~~a---~~~~vPiIVviNKiDl~~a~~e~V~~eL~~~~~~~e~~g~~vp~vpvSAktG~G  439 (787)
T PRK05306        364 VVLVVAADDGVMPQTIE-AINHA---KAAGVPIIVAINKIDKPGANPDRVKQELSEYGLVPEEWGGDTIFVPVSAKTGEG  439 (787)
T ss_pred             EEEEEECCCCCCHhHHH-HHHHH---HhcCCcEEEEEECccccccCHHHHHHHHHHhcccHHHhCCCceEEEEeCCCCCC
Confidence            99999998853222212 22222   23478999999999986432100 01111   112222  26799999999999


Q ss_pred             HHHHHHHHHHH
Q 028884          184 INQLFEEIAKR  194 (202)
Q Consensus       184 i~~~~~~l~~~  194 (202)
                      ++++|++|...
T Consensus       440 I~eLle~I~~~  450 (787)
T PRK05306        440 IDELLEAILLQ  450 (787)
T ss_pred             chHHHHhhhhh
Confidence            99999998753

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.85  E-value=1.6e-20  Score=157.52  Aligned_cols=159  Identities=16%  Similarity=0.198  Sum_probs=110.9

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEec-CCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ-DSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ..+..+|+|+|+.++|||||+++|....+........+.......+.+. ++....+.||||||++.|..++..++..+|
T Consensus       241 ~~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aD  320 (742)
T CHL00189        241 INRPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTD  320 (742)
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCC
Confidence            4567899999999999999999999876544333333322222222221 223378999999999999999998999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHH-------HHHcC--CeEEEeccC
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEY-------AEKNG--MFFIETSAK  179 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~-------~~~~~--~~~~~~s~~  179 (202)
                      ++|+|+|++++...+.... +..+   ...++|++|++||+|+....   .......       ...++  ++++++||+
T Consensus       321 iaILVVDA~dGv~~QT~E~-I~~~---k~~~iPiIVViNKiDl~~~~---~e~v~~eL~~~~ll~e~~g~~vpvv~VSAk  393 (742)
T CHL00189        321 IAILIIAADDGVKPQTIEA-INYI---QAANVPIIVAINKIDKANAN---TERIKQQLAKYNLIPEKWGGDTPMIPISAS  393 (742)
T ss_pred             EEEEEEECcCCCChhhHHH-HHHH---HhcCceEEEEEECCCccccC---HHHHHHHHHHhccchHhhCCCceEEEEECC
Confidence            9999999987533222222 2222   23478999999999986532   1111111       11222  679999999


Q ss_pred             CCCCHHHHHHHHHHHc
Q 028884          180 TADNINQLFEEIAKRL  195 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i  195 (202)
                      +|.|+++++++|....
T Consensus       394 tG~GIdeLle~I~~l~  409 (742)
T CHL00189        394 QGTNIDKLLETILLLA  409 (742)
T ss_pred             CCCCHHHHHHhhhhhh
Confidence            9999999999988754

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

Probab=99.85  E-value=1.9e-20  Score=134.36  Aligned_cols=150  Identities=20%  Similarity=0.189  Sum_probs=95.7

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCCh----------hhhh
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ----------ERYA   97 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~   97 (202)
                      .+....++|+|+|.+|+|||||+++|.+..+.....++.+.......+... +   .+.+||+||.          ..+.
T Consensus        13 ~~~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~-~---~~~liDtpG~~~~~~~~~~~~~~~   88 (179)
T TIGR03598        13 LPPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVN-D---GFRLVDLPGYGYAKVSKEEKEKWQ   88 (179)
T ss_pred             CCCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeC-C---cEEEEeCCCCccccCChhHHHHHH
Confidence            445678999999999999999999999875333323333332222222222 2   5899999994          2343


Q ss_pred             hccccccc---CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC--ChHHHHHHHHHcC--
Q 028884           98 ALAPLYYR---GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV--PAQDGIEYAEKNG--  170 (202)
Q Consensus        98 ~~~~~~~~---~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~~~~--  170 (202)
                      .+...+++   .+|++++|+|++++.+.... .++..+..   .++|+++++||+|+......  ..++.+......+  
T Consensus        89 ~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~-~~~~~~~~---~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~~~  164 (179)
T TIGR03598        89 KLIEEYLEKRENLKGVVLLMDIRHPLKELDL-EMLEWLRE---RGIPVLIVLTKADKLKKSELNKQLKKIKKALKKDADD  164 (179)
T ss_pred             HHHHHHHHhChhhcEEEEEecCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECcccCCHHHHHHHHHHHHHHHhhccCC
Confidence            33344444   35799999999886443333 22333332   36889999999998643221  2233334444433  


Q ss_pred             CeEEEeccCCCCCHH
Q 028884          171 MFFIETSAKTADNIN  185 (202)
Q Consensus       171 ~~~~~~s~~~~~~i~  185 (202)
                      ..++++||++|+|++
T Consensus       165 ~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       165 PSVQLFSSLKKTGID  179 (179)
T ss_pred             CceEEEECCCCCCCC
Confidence            479999999999873

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.85  E-value=7.1e-20  Score=148.14  Aligned_cols=152  Identities=23%  Similarity=0.200  Sum_probs=107.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCC-CccccceeEEEEEEEecCCcEEEEEEEeCCCh--------hhhhhccccccc
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPT-SKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ--------ERYAALAPLYYR  105 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~--------~~~~~~~~~~~~  105 (202)
                      +|+++|.+|+|||||+|+|.+...... ..+..+.+.......+.+   ..+.+|||||.        ..+......+++
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~---~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~   77 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGG---REFILIDTGGIEEDDDGLDKQIREQAEIAIE   77 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECC---eEEEEEECCCCCCcchhHHHHHHHHHHHHHh
Confidence            589999999999999999998764322 223334444444444433   46999999995        445566677788


Q ss_pred             CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC-eEEEeccCCCCCH
Q 028884          106 GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM-FFIETSAKTADNI  184 (202)
Q Consensus       106 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~s~~~~~~i  184 (202)
                      .+|++++|+|+.++.+... ..+...+++   .++|+++|+||+|+......    ... ...++. .++++||++|.|+
T Consensus        78 ~ad~vl~vvD~~~~~~~~d-~~i~~~l~~---~~~piilVvNK~D~~~~~~~----~~~-~~~lg~~~~~~vSa~~g~gv  148 (429)
T TIGR03594        78 EADVILFVVDGREGLTPED-EEIAKWLRK---SGKPVILVANKIDGKKEDAV----AAE-FYSLGFGEPIPISAEHGRGI  148 (429)
T ss_pred             hCCEEEEEEeCCCCCCHHH-HHHHHHHHH---hCCCEEEEEECccCCccccc----HHH-HHhcCCCCeEEEeCCcCCCh
Confidence            9999999999987633322 222333333   36889999999998654321    122 334555 6999999999999


Q ss_pred             HHHHHHHHHHcCCC
Q 028884          185 NQLFEEIAKRLPRP  198 (202)
Q Consensus       185 ~~~~~~l~~~i~~~  198 (202)
                      .++++++.+.+.+.
T Consensus       149 ~~ll~~i~~~l~~~  162 (429)
T TIGR03594       149 GDLLDAILELLPEE  162 (429)
T ss_pred             HHHHHHHHHhcCcc
Confidence            99999999988653

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.84  E-value=5e-20  Score=149.24  Aligned_cols=148  Identities=23%  Similarity=0.208  Sum_probs=103.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChhh--------hhhcccccc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER--------YAALAPLYY  104 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~  104 (202)
                      ++|+++|.+|+|||||+|+|.+..... ...+..+.+.....+.+.+   ..+.+|||||...        +......++
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~---~~~~liDT~G~~~~~~~~~~~~~~~~~~~~   78 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLG---REFILIDTGGIEPDDDGFEKQIREQAELAI   78 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECC---cEEEEEECCCCCCcchhHHHHHHHHHHHHH
Confidence            579999999999999999999876422 2233334444444444433   6899999999875        333445577


Q ss_pred             cCccEEEEEEeCCChhHHH--HHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCe-EEEeccCCC
Q 028884          105 RGAAVAVVVYDITSPDSFN--KAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMF-FIETSAKTA  181 (202)
Q Consensus       105 ~~~d~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~s~~~~  181 (202)
                      ..+|++|+|+|++++.+..  .+..|   ++..   ++|+++|+||+|+.+.    .....++ ...++. ++++||++|
T Consensus        79 ~~ad~il~vvd~~~~~~~~~~~~~~~---l~~~---~~piilv~NK~D~~~~----~~~~~~~-~~lg~~~~~~iSa~~g  147 (435)
T PRK00093         79 EEADVILFVVDGRAGLTPADEEIAKI---LRKS---NKPVILVVNKVDGPDE----EADAYEF-YSLGLGEPYPISAEHG  147 (435)
T ss_pred             HhCCEEEEEEECCCCCCHHHHHHHHH---HHHc---CCcEEEEEECccCccc----hhhHHHH-HhcCCCCCEEEEeeCC
Confidence            8899999999998863332  22333   3322   6899999999996431    1222222 344553 899999999


Q ss_pred             CCHHHHHHHHHHHc
Q 028884          182 DNINQLFEEIAKRL  195 (202)
Q Consensus       182 ~~i~~~~~~l~~~i  195 (202)
                      .|+.++++.+++..
T Consensus       148 ~gv~~l~~~I~~~~  161 (435)
T PRK00093        148 RGIGDLLDAILEEL  161 (435)
T ss_pred             CCHHHHHHHHHhhC
Confidence            99999999998744

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.84  E-value=3e-20  Score=154.32  Aligned_cols=146  Identities=24%  Similarity=0.255  Sum_probs=105.6

Q ss_pred             cCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhc------ccccc--cCccEEE
Q 028884           40 GDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAAL------APLYY--RGAAVAV  111 (202)
Q Consensus        40 G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~--~~~d~~i  111 (202)
                      |.+|+|||||+|+|.+........+..+.+.....+.+.+   ..+++||+||..++...      .+.++  ..+|+++
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~---~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI   77 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQG---EDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVV   77 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECC---eEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEE
Confidence            8999999999999998765444445555555444455433   46899999998765433      23232  3689999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      +|+|.++.+.   ...+...+.   ..+.|+++|+||+|+.+..... .+...+++..+++++++||++|.|++++++++
T Consensus        78 ~VvDat~ler---~l~l~~ql~---~~~~PiIIVlNK~Dl~~~~~i~-~d~~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i  150 (591)
T TIGR00437        78 NVVDASNLER---NLYLTLQLL---ELGIPMILALNLVDEAEKKGIR-IDEEKLEERLGVPVVPTSATEGRGIERLKDAI  150 (591)
T ss_pred             EEecCCcchh---hHHHHHHHH---hcCCCEEEEEehhHHHHhCCCh-hhHHHHHHHcCCCEEEEECCCCCCHHHHHHHH
Confidence            9999987432   222222232   3478999999999986554443 45677888889999999999999999999999


Q ss_pred             HHHc
Q 028884          192 AKRL  195 (202)
Q Consensus       192 ~~~i  195 (202)
                      .+..
T Consensus       151 ~~~~  154 (591)
T TIGR00437       151 RKAI  154 (591)
T ss_pred             HHHh
Confidence            8764

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.

>cd00880 Era_like Era (E

Probab=99.84  E-value=5.3e-20  Score=128.69  Aligned_cols=152  Identities=20%  Similarity=0.177  Sum_probs=102.2

Q ss_pred             EEcCCCCcHHHHHHHHHhCCCCCC-CccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh-------cccccccCccE
Q 028884           38 LLGDSGVGKSCIVLRFVRGQFDPT-SKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA-------LAPLYYRGAAV  109 (202)
Q Consensus        38 v~G~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-------~~~~~~~~~d~  109 (202)
                      ++|.+|+|||||++++.+...... .....+............  ...+.+||+||......       ....+++.+|+
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~   78 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGP--LGPVVLIDTPGIDEAGGLGREREELARRVLERADL   78 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecC--CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCE
Confidence            589999999999999998654422 222222222222222221  25899999999765432       33446788999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChH---HHHHHHHHcCCeEEEeccCCCCCHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQ---DGIEYAEKNGMFFIETSAKTADNINQ  186 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~---~~~~~~~~~~~~~~~~s~~~~~~i~~  186 (202)
                      +++|+|.+++....... +.....   ....|+++|+||.|+.........   ...........+++++|++++.|+.+
T Consensus        79 il~v~~~~~~~~~~~~~-~~~~~~---~~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~  154 (163)
T cd00880          79 ILFVVDADLRADEEEEK-LLELLR---ERGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDE  154 (163)
T ss_pred             EEEEEeCCCCCCHHHHH-HHHHHH---hcCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHH
Confidence            99999999886555443 333332   357889999999998754332221   11223334567899999999999999


Q ss_pred             HHHHHHHHc
Q 028884          187 LFEEIAKRL  195 (202)
Q Consensus       187 ~~~~l~~~i  195 (202)
                      ++++|.+.+
T Consensus       155 l~~~l~~~~  163 (163)
T cd00880         155 LREALIEAL  163 (163)
T ss_pred             HHHHHHhhC
Confidence            999998753

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

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

Probab=99.84  E-value=1.6e-19  Score=131.88  Aligned_cols=117  Identities=17%  Similarity=0.269  Sum_probs=85.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCc-cEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGA-AVAVVV  113 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~-d~~i~v  113 (202)
                      +|+++|++++|||||+++|..+.+....... ............ .....+.+||+||+.+++..+..+++.+ +++|+|
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~-~~~~~~~~~~~~-~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~V   79 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSI-EPNVATFILNSE-GKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFV   79 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcE-eecceEEEeecC-CCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEE
Confidence            6899999999999999999998765544322 222221111111 2236799999999999998888889998 999999


Q ss_pred             EeCCCh-hHHHHHHHHHHHHHH---cCCCCCeEEEEEeCCCCCC
Q 028884          114 YDITSP-DSFNKAQYWVKELQK---HGSPDIVMALVGNKADLHE  153 (202)
Q Consensus       114 ~d~~~~-~s~~~~~~~~~~i~~---~~~~~~p~ivv~nK~D~~~  153 (202)
                      +|+.+. .++.....|+..+..   ...+++|++|++||+|+..
T Consensus        80 vD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~  123 (203)
T cd04105          80 VDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFT  123 (203)
T ss_pred             EECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcc
Confidence            999987 667776555544322   1236899999999999864

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

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.84  E-value=1.9e-19  Score=152.93  Aligned_cols=154  Identities=17%  Similarity=0.182  Sum_probs=110.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhc----------ccc
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAAL----------APL  102 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~----------~~~  102 (202)
                      .++|+++|.+|||||||+|+|.+........+..+.+.....+..   ....+.++|+||..++...          ...
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~vgn~pGvTve~k~g~~~~---~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~   79 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQRVGNWAGVTVERKEGQFST---TDHQVTLVDLPGTYSLTTISSQTSLDEQIACH   79 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCccCCCCCceEeeEEEEEEc---CceEEEEEECCCccccccccccccHHHHHHHH
Confidence            578999999999999999999987653333333333333333332   2268999999997655321          112


Q ss_pred             c--ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCC
Q 028884          103 Y--YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT  180 (202)
Q Consensus       103 ~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~  180 (202)
                      +  ...+|++++|+|+++.+.   ...+...+.+   .++|+++++||+|+.+.... ..+..++.+.++++++++|+++
T Consensus        80 ~l~~~~aD~vI~VvDat~ler---~l~l~~ql~e---~giPvIvVlNK~Dl~~~~~i-~id~~~L~~~LG~pVvpiSA~~  152 (772)
T PRK09554         80 YILSGDADLLINVVDASNLER---NLYLTLQLLE---LGIPCIVALNMLDIAEKQNI-RIDIDALSARLGCPVIPLVSTR  152 (772)
T ss_pred             HHhccCCCEEEEEecCCcchh---hHHHHHHHHH---cCCCEEEEEEchhhhhccCc-HHHHHHHHHHhCCCEEEEEeec
Confidence            2  246899999999998533   2223344443   36899999999998755444 3556777888999999999999


Q ss_pred             CCCHHHHHHHHHHHcC
Q 028884          181 ADNINQLFEEIAKRLP  196 (202)
Q Consensus       181 ~~~i~~~~~~l~~~i~  196 (202)
                      +.|++++++.+.+...
T Consensus       153 g~GIdeL~~~I~~~~~  168 (772)
T PRK09554        153 GRGIEALKLAIDRHQA  168 (772)
T ss_pred             CCCHHHHHHHHHHhhh
Confidence            9999999999987653

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.83  E-value=9e-20  Score=142.74  Aligned_cols=152  Identities=20%  Similarity=0.168  Sum_probs=111.6

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCC-ccccceeEEEEEEEecCCcEEEEEEEeCCChhh---------hhhccccc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTS-KVTVGASFLSQTIALQDSTTVKFEIWDTAGQER---------YAALAPLY  103 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~  103 (202)
                      ..|+++|.||+|||||.|+|.+....... .+..+.+..+....+.+   ..|.++||+|.+.         ........
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~---~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~A   80 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLG---REFILIDTGGLDDGDEDELQELIREQALIA   80 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcC---ceEEEEECCCCCcCCchHHHHHHHHHHHHH
Confidence            57999999999999999999998776554 45566666666666655   4599999999542         23455667


Q ss_pred             ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCC
Q 028884          104 YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADN  183 (202)
Q Consensus       104 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~  183 (202)
                      +..||++|||+|...+-+.++ ....+.++   ..++|+++|+||+|..+    ......++...-...++.+||.+|.|
T Consensus        81 i~eADvilfvVD~~~Git~~D-~~ia~~Lr---~~~kpviLvvNK~D~~~----~e~~~~efyslG~g~~~~ISA~Hg~G  152 (444)
T COG1160          81 IEEADVILFVVDGREGITPAD-EEIAKILR---RSKKPVILVVNKIDNLK----AEELAYEFYSLGFGEPVPISAEHGRG  152 (444)
T ss_pred             HHhCCEEEEEEeCCCCCCHHH-HHHHHHHH---hcCCCEEEEEEcccCch----hhhhHHHHHhcCCCCceEeehhhccC
Confidence            888999999999998643322 22223333   23689999999999542    22334444444444699999999999


Q ss_pred             HHHHHHHHHHHcC
Q 028884          184 INQLFEEIAKRLP  196 (202)
Q Consensus       184 i~~~~~~l~~~i~  196 (202)
                      +.++++.+++.+.
T Consensus       153 i~dLld~v~~~l~  165 (444)
T COG1160         153 IGDLLDAVLELLP  165 (444)
T ss_pred             HHHHHHHHHhhcC
Confidence            9999999999973

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.83  E-value=3.5e-19  Score=151.43  Aligned_cols=155  Identities=21%  Similarity=0.149  Sum_probs=104.6

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC-ccccceeEEEEEEEecCCcEEEEEEEeCCChhh--------hhhcccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS-KVTVGASFLSQTIALQDSTTVKFEIWDTAGQER--------YAALAPL  102 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~  102 (202)
                      ...+|+++|.+++|||||+|+|++....... .+..+.+.......+.+   ..+.+|||||.+.        +......
T Consensus       274 ~~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~---~~~~liDT~G~~~~~~~~~~~~~~~~~~  350 (712)
T PRK09518        274 AVGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAG---TDFKLVDTGGWEADVEGIDSAIASQAQI  350 (712)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECC---EEEEEEeCCCcCCCCccHHHHHHHHHHH
Confidence            4578999999999999999999987542222 23333333332333322   5789999999652        3344556


Q ss_pred             cccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCC
Q 028884          103 YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD  182 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  182 (202)
                      +++.+|++|+|+|++++.... -..|...++.   .++|+++|+||+|+....   ......+....+ ..+++||++|.
T Consensus       351 ~~~~aD~iL~VvDa~~~~~~~-d~~i~~~Lr~---~~~pvIlV~NK~D~~~~~---~~~~~~~~lg~~-~~~~iSA~~g~  422 (712)
T PRK09518        351 AVSLADAVVFVVDGQVGLTST-DERIVRMLRR---AGKPVVLAVNKIDDQASE---YDAAEFWKLGLG-EPYPISAMHGR  422 (712)
T ss_pred             HHHhCCEEEEEEECCCCCCHH-HHHHHHHHHh---cCCCEEEEEECcccccch---hhHHHHHHcCCC-CeEEEECCCCC
Confidence            788999999999998752211 1234444543   478999999999975421   111112222223 36799999999


Q ss_pred             CHHHHHHHHHHHcCC
Q 028884          183 NINQLFEEIAKRLPR  197 (202)
Q Consensus       183 ~i~~~~~~l~~~i~~  197 (202)
                      |+.+++++|++.+..
T Consensus       423 GI~eLl~~i~~~l~~  437 (712)
T PRK09518        423 GVGDLLDEALDSLKV  437 (712)
T ss_pred             CchHHHHHHHHhccc
Confidence            999999999998865

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.83  E-value=2e-19  Score=143.98  Aligned_cols=167  Identities=20%  Similarity=0.193  Sum_probs=107.9

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCC---CCccccceeEEEEE--------------EEe----cCC-----cEE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP---TSKVTVGASFLSQT--------------IAL----QDS-----TTV   83 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~---~~~~~~~~~~~~~~--------------~~~----~~~-----~~~   83 (202)
                      +++.++|+++|+.++|||||+++|.+...+.   ......+.......              +..    ...     ...
T Consensus         1 ~~~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (406)
T TIGR03680         1 RQPEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLR   80 (406)
T ss_pred             CCceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCcccccccccccccccccccccc
Confidence            3568999999999999999999997532211   10001111111000              000    000     135


Q ss_pred             EEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC--ChHH
Q 028884           84 KFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV--PAQD  161 (202)
Q Consensus        84 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~  161 (202)
                      .+.+||+||++.|...+......+|++++|+|++++....+..+.+..+....  ..|+++++||+|+.+....  ..++
T Consensus        81 ~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~g--i~~iIVvvNK~Dl~~~~~~~~~~~~  158 (406)
T TIGR03680        81 RVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEIIG--IKNIVIVQNKIDLVSKEKALENYEE  158 (406)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHcC--CCeEEEEEEccccCCHHHHHHHHHH
Confidence            79999999999998877777888999999999997531123333334343332  2468999999998753221  1122


Q ss_pred             HHHHHHHc---CCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          162 GIEYAEKN---GMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       162 ~~~~~~~~---~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      ...+....   +++++++|+++|.|+++++++|...+..+
T Consensus       159 i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l~~~  198 (406)
T TIGR03680       159 IKEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFIPTP  198 (406)
T ss_pred             HHhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhCCCC
Confidence            33333322   56899999999999999999999877654

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.83  E-value=2.6e-19  Score=145.02  Aligned_cols=157  Identities=20%  Similarity=0.209  Sum_probs=102.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC-ccccceeEEEEEEEecCCcEEEEEEEeCCChhh----------hhh-
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS-KVTVGASFLSQTIALQDSTTVKFEIWDTAGQER----------YAA-   98 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~-   98 (202)
                      ...++|+|+|.+|+|||||+|+|++....... .+..+.+.....+... +  ..+.+|||||...          +.. 
T Consensus       171 ~~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~-~--~~~~lvDT~G~~~~~~~~~~~e~~~~~  247 (435)
T PRK00093        171 DEPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERD-G--QKYTLIDTAGIRRKGKVTEGVEKYSVI  247 (435)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEEC-C--eeEEEEECCCCCCCcchhhHHHHHHHH
Confidence            35799999999999999999999986533222 2222222222233332 2  4688999999532          221 


Q ss_pred             cccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH----HcCCeEE
Q 028884           99 LAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAE----KNGMFFI  174 (202)
Q Consensus        99 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~----~~~~~~~  174 (202)
                      ....+++.+|++|+|+|++++.+..... ++..+..   .+.|+++|+||+|+.+... ..+....+..    ...++++
T Consensus       248 ~~~~~~~~ad~~ilViD~~~~~~~~~~~-i~~~~~~---~~~~~ivv~NK~Dl~~~~~-~~~~~~~~~~~l~~~~~~~i~  322 (435)
T PRK00093        248 RTLKAIERADVVLLVIDATEGITEQDLR-IAGLALE---AGRALVIVVNKWDLVDEKT-MEEFKKELRRRLPFLDYAPIV  322 (435)
T ss_pred             HHHHHHHHCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCcEEEEEECccCCCHHH-HHHHHHHHHHhcccccCCCEE
Confidence            1234677899999999999886554432 3333333   3688999999999873321 1111111111    2357899


Q ss_pred             EeccCCCCCHHHHHHHHHHHc
Q 028884          175 ETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       175 ~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      ++||+++.|+.++++.+.+..
T Consensus       323 ~~SA~~~~gv~~l~~~i~~~~  343 (435)
T PRK00093        323 FISALTGQGVDKLLEAIDEAY  343 (435)
T ss_pred             EEeCCCCCCHHHHHHHHHHHH
Confidence            999999999999999987644

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.82  E-value=3.2e-19  Score=151.72  Aligned_cols=157  Identities=19%  Similarity=0.208  Sum_probs=106.5

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChh----------hhhhc-
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE----------RYAAL-   99 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~~-   99 (202)
                      ..++|+++|.+|+|||||+|+|++..... ...+..+.+.....+.+.+ .  .+.+|||||..          .|..+ 
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~-~--~~~liDTaG~~~~~~~~~~~e~~~~~r  525 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDG-E--DWLFIDTAGIKRRQHKLTGAEYYSSLR  525 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECC-C--EEEEEECCCcccCcccchhHHHHHHHH
Confidence            35899999999999999999999976432 2223333333333444433 3  57799999942          23222 


Q ss_pred             ccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHH-HHHH----cCCeEE
Q 028884          100 APLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIE-YAEK----NGMFFI  174 (202)
Q Consensus       100 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~-~~~~----~~~~~~  174 (202)
                      ...+++.+|++++|+|++++.+..... ++..+..   .++|+++|+||+|+.+...  .+.... +...    ...+++
T Consensus       526 ~~~~i~~advvilViDat~~~s~~~~~-i~~~~~~---~~~piIiV~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~ii  599 (712)
T PRK09518        526 TQAAIERSELALFLFDASQPISEQDLK-VMSMAVD---AGRALVLVFNKWDLMDEFR--RQRLERLWKTEFDRVTWARRV  599 (712)
T ss_pred             HHHHhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEEchhcCChhH--HHHHHHHHHHhccCCCCCCEE
Confidence            234578899999999999987766654 3333433   3689999999999865322  111111 1111    134679


Q ss_pred             EeccCCCCCHHHHHHHHHHHcCC
Q 028884          175 ETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       175 ~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      ++||++|.|+.++++.+.+.+..
T Consensus       600 ~iSAktg~gv~~L~~~i~~~~~~  622 (712)
T PRK09518        600 NLSAKTGWHTNRLAPAMQEALES  622 (712)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999888764

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.82  E-value=4.2e-19  Score=147.18  Aligned_cols=159  Identities=15%  Similarity=0.230  Sum_probs=112.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC--CCCCCC--------------ccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG--QFDPTS--------------KVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA   97 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~--~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   97 (202)
                      -+|+++|+.++|||||+++|+..  .+....              ...++.......+.+.  . +.+.+|||||+..|.
T Consensus         2 RNIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~--~-~kinlIDTPGh~DF~   78 (594)
T TIGR01394         2 RNIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYN--G-TKINIVDTPGHADFG   78 (594)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEEC--C-EEEEEEECCCHHHHH
Confidence            37999999999999999999863  221111              1112222222233332  2 789999999999999


Q ss_pred             hcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC-ChHHHHHHHH-------Hc
Q 028884           98 ALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV-PAQDGIEYAE-------KN  169 (202)
Q Consensus        98 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~-~~~~~~~~~~-------~~  169 (202)
                      ..+..+++.+|++++|+|+.+.. ..+...|+..+...   ++|+++|+||+|+...... ...+...+..       ..
T Consensus        79 ~ev~~~l~~aD~alLVVDa~~G~-~~qT~~~l~~a~~~---~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l  154 (594)
T TIGR01394        79 GEVERVLGMVDGVLLLVDASEGP-MPQTRFVLKKALEL---GLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQL  154 (594)
T ss_pred             HHHHHHHHhCCEEEEEEeCCCCC-cHHHHHHHHHHHHC---CCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccc
Confidence            88899999999999999998753 34455666665543   6889999999998653321 1223333332       23


Q ss_pred             CCeEEEeccCCCC----------CHHHHHHHHHHHcCCCC
Q 028884          170 GMFFIETSAKTAD----------NINQLFEEIAKRLPRPS  199 (202)
Q Consensus       170 ~~~~~~~s~~~~~----------~i~~~~~~l~~~i~~~~  199 (202)
                      .++++.+|+++|.          |+..+|+.|++.+..+.
T Consensus       155 ~~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP~P~  194 (594)
T TIGR01394       155 DFPIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVPAPK  194 (594)
T ss_pred             cCcEEechhhcCcccccCcccccCHHHHHHHHHHhCCCCC
Confidence            5679999999996          79999999999998764

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.

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

Probab=99.82  E-value=3.2e-20  Score=126.79  Aligned_cols=162  Identities=22%  Similarity=0.271  Sum_probs=120.0

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCC---CC----CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccc
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQF---DP----TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPL  102 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~---~~----~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~  102 (202)
                      .+....|+++|..++|||||+.++.....   ..    ...++.+.......+  .   ...+.+||..|++..+++|..
T Consensus        14 ~Ke~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i~v--~---~~~l~fwdlgGQe~lrSlw~~   88 (197)
T KOG0076|consen   14 KKEDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTIEV--C---NAPLSFWDLGGQESLRSLWKK   88 (197)
T ss_pred             hhhhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecceee--c---cceeEEEEcCChHHHHHHHHH
Confidence            34578899999999999999987764221   11    112233333322222  2   257999999999999999999


Q ss_pred             cccCccEEEEEEeCCChhHHHHHHHHHHHH-HHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHH---HH---HcCCeEEE
Q 028884          103 YYRGAAVAVVVYDITSPDSFNKAQYWVKEL-QKHGSPDIVMALVGNKADLHEKREVPAQDGIEY---AE---KNGMFFIE  175 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i-~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~---~~---~~~~~~~~  175 (202)
                      |+..++++|++||+++++.|+.....++.+ ......++|+++.+||.|+.+....  ++....   +.   ...+++.+
T Consensus        89 yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~~~--~El~~~~~~~e~~~~rd~~~~p  166 (197)
T KOG0076|consen   89 YYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAMEA--AELDGVFGLAELIPRRDNPFQP  166 (197)
T ss_pred             HHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhhhH--HHHHHHhhhhhhcCCccCcccc
Confidence            999999999999999998888776555554 3345568999999999998664332  222221   22   23567999


Q ss_pred             eccCCCCCHHHHHHHHHHHcCCC
Q 028884          176 TSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       176 ~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      +|+.+|+|+++...|++..+.++
T Consensus       167 vSal~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  167 VSALTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             chhhhcccHHHHHHHHHHHHhhc
Confidence            99999999999999999998877

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

Probab=99.82  E-value=6.1e-19  Score=141.19  Aligned_cols=169  Identities=20%  Similarity=0.191  Sum_probs=106.3

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC---ccccceeEEEEEEEe------------------c--C---Cc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS---KVTVGASFLSQTIAL------------------Q--D---ST   81 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~---~~~~~~~~~~~~~~~------------------~--~---~~   81 (202)
                      +++++.++|+++|+.++|||||+.+|.+...+...   ....+.........+                  .  +   ..
T Consensus         4 ~~~~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (411)
T PRK04000          4 EKVQPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETEL   83 (411)
T ss_pred             ccCCCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCcccccccccccccccccccc
Confidence            34567899999999999999999999653211111   111111111000000                  0  0   01


Q ss_pred             EEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC--h
Q 028884           82 TVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP--A  159 (202)
Q Consensus        82 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~--~  159 (202)
                      ...+.+||+||++.|..........+|++++|+|++++....+....+..+....  ..|+++|+||+|+.+.....  .
T Consensus        84 ~~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~~~--i~~iiVVlNK~Dl~~~~~~~~~~  161 (411)
T PRK04000         84 LRRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDIIG--IKNIVIVQNKIDLVSKERALENY  161 (411)
T ss_pred             ccEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHHcC--CCcEEEEEEeeccccchhHHHHH
Confidence            2578999999999887666656667899999999996531111122222233221  24689999999986543211  1


Q ss_pred             HHHHHHHHH---cCCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          160 QDGIEYAEK---NGMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       160 ~~~~~~~~~---~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      ++...+...   ...+++++|++++.|++++++.|.+.+..+
T Consensus       162 ~~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l~~~  203 (411)
T PRK04000        162 EQIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEIPTP  203 (411)
T ss_pred             HHHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhCCCC
Confidence            223333332   246799999999999999999999987654

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

Probab=99.82  E-value=4.2e-19  Score=143.23  Aligned_cols=151  Identities=17%  Similarity=0.116  Sum_probs=100.2

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC--CCCC-----------------------------CCccccceeEEEEEEEecC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG--QFDP-----------------------------TSKVTVGASFLSQTIALQD   79 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~--~~~~-----------------------------~~~~~~~~~~~~~~~~~~~   79 (202)
                      .+.++|+++|+.++|||||+++|+..  ....                             ......+.+.....+..  
T Consensus         5 ~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~--   82 (426)
T TIGR00483         5 KEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFET--   82 (426)
T ss_pred             CceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEcc--
Confidence            46799999999999999999999862  1110                             01122333333333332  


Q ss_pred             CcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHH--HHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC-
Q 028884           80 STTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNK--AQYWVKELQKHGSPDIVMALVGNKADLHEKRE-  156 (202)
Q Consensus        80 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~-  156 (202)
                      + .+.+.+||+||++.|.......+..+|++++|+|+++++++..  ...++......  ...|++|++||+|+.+... 
T Consensus        83 ~-~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~--~~~~iIVviNK~Dl~~~~~~  159 (426)
T TIGR00483        83 D-KYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTL--GINQLIVAINKMDSVNYDEE  159 (426)
T ss_pred             C-CeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHc--CCCeEEEEEEChhccCccHH
Confidence            2 2789999999999887666667788999999999998743211  12222222222  2357999999999864221 


Q ss_pred             ---CChHHHHHHHHHcC-----CeEEEeccCCCCCHHH
Q 028884          157 ---VPAQDGIEYAEKNG-----MFFIETSAKTADNINQ  186 (202)
Q Consensus       157 ---~~~~~~~~~~~~~~-----~~~~~~s~~~~~~i~~  186 (202)
                         ....+...+++..+     ++++++||++|.|+.+
T Consensus       160 ~~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~  197 (426)
T TIGR00483       160 EFEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIK  197 (426)
T ss_pred             HHHHHHHHHHHHHHHcCCCcccceEEEeeccccccccc
Confidence               11234455555554     5799999999999985

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.

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.81  E-value=1.8e-18  Score=119.79  Aligned_cols=157  Identities=22%  Similarity=0.302  Sum_probs=113.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc-------cc---cceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK-------VT---VGASFLSQTIALQDSTTVKFEIWDTAGQERYAALA  100 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-------~~---~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~  100 (202)
                      -...+|+|.|+.++||||+++++..........       ..   .+.....-...+.++  ..+++++|||++++..+|
T Consensus         8 ~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~~~--~~v~LfgtPGq~RF~fm~   85 (187)
T COG2229           8 MIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDED--TGVHLFGTPGQERFKFMW   85 (187)
T ss_pred             ccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEcCc--ceEEEecCCCcHHHHHHH
Confidence            467899999999999999999999865311110       00   111111111222221  479999999999999999


Q ss_pred             cccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH--cCCeEEEecc
Q 028884          101 PLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK--NGMFFIETSA  178 (202)
Q Consensus       101 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~--~~~~~~~~s~  178 (202)
                      ..+.++++++|+++|.+.+..+ .....+..+... ++ +|++|++||.|+......  +..++....  ...+++++++
T Consensus        86 ~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~-~~-ip~vVa~NK~DL~~a~pp--e~i~e~l~~~~~~~~vi~~~a  160 (187)
T COG2229          86 EILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSR-NP-IPVVVAINKQDLFDALPP--EKIREALKLELLSVPVIEIDA  160 (187)
T ss_pred             HHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhc-cC-CCEEEEeeccccCCCCCH--HHHHHHHHhccCCCceeeeec
Confidence            9999999999999999998777 334444444433 22 999999999999775443  344443333  3888999999


Q ss_pred             CCCCCHHHHHHHHHHH
Q 028884          179 KTADNINQLFEEIAKR  194 (202)
Q Consensus       179 ~~~~~i~~~~~~l~~~  194 (202)
                      .++++..+.++.+...
T Consensus       161 ~e~~~~~~~L~~ll~~  176 (187)
T COG2229         161 TEGEGARDQLDVLLLK  176 (187)
T ss_pred             ccchhHHHHHHHHHhh
Confidence            9999999999998877

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.81  E-value=2.1e-18  Score=124.88  Aligned_cols=156  Identities=13%  Similarity=0.115  Sum_probs=99.9

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCC----------------CCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFD----------------PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY   96 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   96 (202)
                      .++|+++|+.++|||||+++|++....                .......+....  ...+..+ ...+.++||||+..|
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~--~~~~~~~-~~~i~~iDtPG~~~~   78 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTA--HVEYETA-NRHYAHVDCPGHADY   78 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEee--eeEecCC-CeEEEEEECcCHHHH
Confidence            589999999999999999999864100                000112222222  2222222 257899999999888


Q ss_pred             hhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCCCCCC---ChHHHHHHHHHc---
Q 028884           97 AALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEKREV---PAQDGIEYAEKN---  169 (202)
Q Consensus        97 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~~~~~---~~~~~~~~~~~~---  169 (202)
                      .......+..+|++++|+|+..+.. ......+..+...   ++| +++++||+|+......   ...+...+....   
T Consensus        79 ~~~~~~~~~~~D~~ilVvda~~g~~-~~~~~~~~~~~~~---~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~  154 (195)
T cd01884          79 IKNMITGAAQMDGAILVVSATDGPM-PQTREHLLLARQV---GVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFD  154 (195)
T ss_pred             HHHHHHHhhhCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhccc
Confidence            7777777889999999999987532 2223344444443   455 7788999998643221   112333343333   


Q ss_pred             --CCeEEEeccCCCCCH----------HHHHHHHHHHc
Q 028884          170 --GMFFIETSAKTADNI----------NQLFEEIAKRL  195 (202)
Q Consensus       170 --~~~~~~~s~~~~~~i----------~~~~~~l~~~i  195 (202)
                        .++++++|+++|.|+          ..+++.|...+
T Consensus       155 ~~~v~iipiSa~~g~n~~~~~~w~~~~~~l~~~l~~~~  192 (195)
T cd01884         155 GDNTPIVRGSALKALEGDDPNKWVKKILELLDALDSYI  192 (195)
T ss_pred             ccCCeEEEeeCccccCCCCCCcchhcHhHHHHHHHhCC
Confidence              367999999999884          45666655443

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.

>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=99.81  E-value=3.1e-18  Score=127.43  Aligned_cols=152  Identities=20%  Similarity=0.185  Sum_probs=100.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh-------hcccccccCc
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA-------ALAPLYYRGA  107 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~~~~~~~  107 (202)
                      +|+++|.+|+|||||+++|.+........+..+.......+.+.+   ..+++||+||..+..       .....+++.+
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~~~---~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~a   78 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEYKG---AKIQLLDLPGIIEGAADGKGRGRQVIAVARTA   78 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCccccceEEEEEECC---eEEEEEECCCcccccccchhHHHHHHHhhccC
Confidence            789999999999999999998653222222222222233333333   579999999964321       2334568899


Q ss_pred             cEEEEEEeCCChh-HHHHHHHHHHHH-----------------------------------------HH-----------
Q 028884          108 AVAVVVYDITSPD-SFNKAQYWVKEL-----------------------------------------QK-----------  134 (202)
Q Consensus       108 d~~i~v~d~~~~~-s~~~~~~~~~~i-----------------------------------------~~-----------  134 (202)
                      |++++|+|++++. ....+...++..                                         ..           
T Consensus        79 d~il~V~D~t~~~~~~~~~~~~l~~~gi~l~~~~~~v~~~~~~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v~~~  158 (233)
T cd01896          79 DLILMVLDATKPEGHREILERELEGVGIRLNKRPPNITIKKKKKGGINITSTVPLTKLDEKTIKAILREYKIHNADVLIR  158 (233)
T ss_pred             CEEEEEecCCcchhHHHHHHHHHHHcCceecCCCCeEEEEEEecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeEEEEEc
Confidence            9999999998764 333333333210                                         00           


Q ss_pred             -------------cCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          135 -------------HGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       135 -------------~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                                   -....+|+++|+||+|+..     .++...++..  ..++++||+++.|++++|+.|++.+.
T Consensus       159 ~~~~~~~~~~~~~~~~~y~p~iiV~NK~Dl~~-----~~~~~~~~~~--~~~~~~SA~~g~gi~~l~~~i~~~L~  226 (233)
T cd01896         159 EDITVDDLIDVIEGNRVYIPCLYVYNKIDLIS-----IEELDLLARQ--PNSVVISAEKGLNLDELKERIWDKLG  226 (233)
T ss_pred             cCCCHHHHHHHHhCCceEeeEEEEEECccCCC-----HHHHHHHhcC--CCEEEEcCCCCCCHHHHHHHHHHHhC
Confidence                         0012478999999999753     2333344433  35899999999999999999998764

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.

>PRK10218 GTP-binding protein; Provisional

Probab=99.81  E-value=2.1e-18  Score=142.95  Aligned_cols=163  Identities=17%  Similarity=0.235  Sum_probs=114.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh--CCCCCCC------------ccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR--GQFDPTS------------KVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA   97 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~--~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   97 (202)
                      ..-+|+++|+.++|||||+++|+.  +.+....            ..+.+..+......+..+. +.+.+|||||+..|.
T Consensus         4 ~iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~-~~inliDTPG~~df~   82 (607)
T PRK10218          4 KLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWND-YRINIVDTPGHADFG   82 (607)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCC-EEEEEEECCCcchhH
Confidence            457899999999999999999997  3222111            1122333333333333333 789999999999999


Q ss_pred             hcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC-ChHHHHHHHH-------Hc
Q 028884           98 ALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV-PAQDGIEYAE-------KN  169 (202)
Q Consensus        98 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~-~~~~~~~~~~-------~~  169 (202)
                      ..+..+++.+|++|+|+|+.+.... +...++..+..   .++|.++++||+|+...... ..++...+..       ..
T Consensus        83 ~~v~~~l~~aDg~ILVVDa~~G~~~-qt~~~l~~a~~---~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~  158 (607)
T PRK10218         83 GEVERVMSMVDSVLLVVDAFDGPMP-QTRFVTKKAFA---YGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQL  158 (607)
T ss_pred             HHHHHHHHhCCEEEEEEecccCccH-HHHHHHHHHHH---cCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCcccccc
Confidence            9999999999999999999876322 23333343333   36889999999998653221 1223333321       13


Q ss_pred             CCeEEEeccCCCC----------CHHHHHHHHHHHcCCCC
Q 028884          170 GMFFIETSAKTAD----------NINQLFEEIAKRLPRPS  199 (202)
Q Consensus       170 ~~~~~~~s~~~~~----------~i~~~~~~l~~~i~~~~  199 (202)
                      .++++.+|+++|.          ++..+++.|++.+..+.
T Consensus       159 ~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP~P~  198 (607)
T PRK10218        159 DFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVPAPD  198 (607)
T ss_pred             CCCEEEeEhhcCcccCCccccccchHHHHHHHHHhCCCCC
Confidence            4679999999998          58999999999998774

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.81  E-value=2.2e-18  Score=128.16  Aligned_cols=170  Identities=17%  Similarity=0.154  Sum_probs=115.0

Q ss_pred             CCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh----------
Q 028884           26 SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER----------   95 (202)
Q Consensus        26 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------   95 (202)
                      ..+..++.++|+|+|+||+|||||.|.+.+.+..+......++.-...-+.. .+. .++.|+||||.-.          
T Consensus        65 de~e~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~t-s~e-TQlvf~DTPGlvs~~~~r~~~l~  142 (379)
T KOG1423|consen   65 DEEEAQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIIT-SGE-TQLVFYDTPGLVSKKMHRRHHLM  142 (379)
T ss_pred             CchhcceEEEEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEe-cCc-eEEEEecCCcccccchhhhHHHH
Confidence            3456688999999999999999999999999998888776665444433333 333 6999999999321          


Q ss_pred             --hhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC-------------CC--
Q 028884           96 --YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE-------------VP--  158 (202)
Q Consensus        96 --~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~-------------~~--  158 (202)
                        +-......+..||.+++++|++++...-. ...+..+...  .++|-++|.||.|......             ..  
T Consensus       143 ~s~lq~~~~a~q~AD~vvVv~Das~tr~~l~-p~vl~~l~~y--s~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~  219 (379)
T KOG1423|consen  143 MSVLQNPRDAAQNADCVVVVVDASATRTPLH-PRVLHMLEEY--SKIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKL  219 (379)
T ss_pred             HHhhhCHHHHHhhCCEEEEEEeccCCcCccC-hHHHHHHHHH--hcCCceeeccchhcchhhhHHhhhHHhccccccchh
Confidence              11223345677999999999996422111 2233333333  3788999999999764321             11  


Q ss_pred             hHHHHHHHHH----------cCC----eEEEeccCCCCCHHHHHHHHHHHcCCCCC
Q 028884          159 AQDGIEYAEK----------NGM----FFIETSAKTADNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       159 ~~~~~~~~~~----------~~~----~~~~~s~~~~~~i~~~~~~l~~~i~~~~~  200 (202)
                      ..+.++....          .++    .+|.+||+.|+|++++-++|...+....+
T Consensus       220 kl~v~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~~gpW  275 (379)
T KOG1423|consen  220 KLEVQEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAPPGPW  275 (379)
T ss_pred             hhhHHHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCCCCCC
Confidence            1111111111          112    38999999999999999999998887654

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.81  E-value=6.9e-19  Score=141.98  Aligned_cols=152  Identities=19%  Similarity=0.159  Sum_probs=98.4

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCC-------------------------------CCccccceeEEEEEEEec
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP-------------------------------TSKVTVGASFLSQTIALQ   78 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~   78 (202)
                      .++.++|+++|++++|||||+++|+...-..                               ......+.+.....+.. 
T Consensus         3 ~k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~-   81 (425)
T PRK12317          3 EKPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFET-   81 (425)
T ss_pred             CCCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEec-
Confidence            3568999999999999999999998532110                               01222333333333332 


Q ss_pred             CCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHH-HHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC-
Q 028884           79 DSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFN-KAQYWVKELQKHGSPDIVMALVGNKADLHEKRE-  156 (202)
Q Consensus        79 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~-~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~-  156 (202)
                       + .+.+.+|||||++.|.......+..+|++++|+|++++..+. ....++..+....  ..|+++++||+|+..... 
T Consensus        82 -~-~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~--~~~iivviNK~Dl~~~~~~  157 (425)
T PRK12317         82 -D-KYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTLG--INQLIVAINKMDAVNYDEK  157 (425)
T ss_pred             -C-CeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHcC--CCeEEEEEEccccccccHH
Confidence             2 268999999999887655555578899999999999731222 2223333333321  246899999999865221 


Q ss_pred             ---CChHHHHHHHHHcC-----CeEEEeccCCCCCHHH
Q 028884          157 ---VPAQDGIEYAEKNG-----MFFIETSAKTADNINQ  186 (202)
Q Consensus       157 ---~~~~~~~~~~~~~~-----~~~~~~s~~~~~~i~~  186 (202)
                         ...++...+....+     .+++++||++|.|+.+
T Consensus       158 ~~~~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~  195 (425)
T PRK12317        158 RYEEVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVK  195 (425)
T ss_pred             HHHHHHHHHHHHHHhhCCCcCcceEEEeecccCCCccc
Confidence               11233444444444     5699999999999986

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.81  E-value=1.5e-18  Score=144.48  Aligned_cols=157  Identities=15%  Similarity=0.110  Sum_probs=106.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC---CCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ---FDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      -|.++|+.++|||||+++|.+..   +.......++.+.....+...++  ..+.+||+||++.|.......+..+|+++
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g--~~i~~IDtPGhe~fi~~m~~g~~~~D~~l   79 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDG--RVLGFIDVPGHEKFLSNMLAGVGGIDHAL   79 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCC--cEEEEEECCCHHHHHHHHHHHhhcCCEEE
Confidence            57899999999999999999743   22222234444443333333333  35899999999998776667788899999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCCCCCC--ChHHHHHHHHHcC---CeEEEeccCCCCCHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEKREV--PAQDGIEYAEKNG---MFFIETSAKTADNIN  185 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~~~~~--~~~~~~~~~~~~~---~~~~~~s~~~~~~i~  185 (202)
                      +|+|++++.. .+..+.+..+...   ++| ++||+||+|+.+....  ..++...+....+   .+++++|+++|.|++
T Consensus        80 LVVda~eg~~-~qT~ehl~il~~l---gi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~  155 (614)
T PRK10512         80 LVVACDDGVM-AQTREHLAILQLT---GNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEGRGID  155 (614)
T ss_pred             EEEECCCCCc-HHHHHHHHHHHHc---CCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCH
Confidence            9999987522 2223334444433   344 5799999998653221  1233344444433   679999999999999


Q ss_pred             HHHHHHHHHcCC
Q 028884          186 QLFEEIAKRLPR  197 (202)
Q Consensus       186 ~~~~~l~~~i~~  197 (202)
                      ++++.|.+....
T Consensus       156 ~L~~~L~~~~~~  167 (614)
T PRK10512        156 ALREHLLQLPER  167 (614)
T ss_pred             HHHHHHHHhhcc
Confidence            999999876544

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.81  E-value=5.4e-19  Score=129.63  Aligned_cols=146  Identities=23%  Similarity=0.203  Sum_probs=91.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCC-------------------------------CccccceeEEEEEEEecCCcEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPT-------------------------------SKVTVGASFLSQTIALQDSTTV   83 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~~   83 (202)
                      ||+++|++++|||||+++|+...-...                               .....+.+.....+.+.   ..
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~---~~   77 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTP---KR   77 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecC---Cc
Confidence            689999999999999999976321111                               00112222222222222   24


Q ss_pred             EEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC----Ch
Q 028884           84 KFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV----PA  159 (202)
Q Consensus        84 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~----~~  159 (202)
                      .+.+|||||++.|.......++.+|++|+|+|++++..-. .......+....  ..++++|+||+|+.+....    ..
T Consensus        78 ~~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~-~~~~~~~~~~~~--~~~iIvviNK~D~~~~~~~~~~~i~  154 (208)
T cd04166          78 KFIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQ-TRRHSYILSLLG--IRHVVVAVNKMDLVDYSEEVFEEIV  154 (208)
T ss_pred             eEEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHh-HHHHHHHHHHcC--CCcEEEEEEchhcccCCHHHHHHHH
Confidence            7889999999888666666788999999999998763222 222222222221  2347888999998643211    11


Q ss_pred             HHHHHHHHHcC---CeEEEeccCCCCCHHH
Q 028884          160 QDGIEYAEKNG---MFFIETSAKTADNINQ  186 (202)
Q Consensus       160 ~~~~~~~~~~~---~~~~~~s~~~~~~i~~  186 (202)
                      .+...+....+   .+++++||++|.|+.+
T Consensus       155 ~~~~~~~~~~~~~~~~ii~iSA~~g~ni~~  184 (208)
T cd04166         155 ADYLAFAAKLGIEDITFIPISALDGDNVVS  184 (208)
T ss_pred             HHHHHHHHHcCCCCceEEEEeCCCCCCCcc
Confidence            23344444555   3589999999999875

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.

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

Probab=99.80  E-value=1.9e-18  Score=142.90  Aligned_cols=154  Identities=18%  Similarity=0.162  Sum_probs=100.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccc----eeEEEEEEEec--C----CcE-----EEEEEEeCCChhhhh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVG----ASFLSQTIALQ--D----STT-----VKFEIWDTAGQERYA   97 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~----~~~~~~~~~~~--~----~~~-----~~~~i~D~~G~~~~~   97 (202)
                      ..-|+++|++++|||||+++|.+..+........+    ...........  .    ...     ..+.+|||||++.|.
T Consensus         4 ~piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~   83 (590)
T TIGR00491         4 SPIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFT   83 (590)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHH
Confidence            45699999999999999999998765433222111    11111110000  0    000     138899999999999


Q ss_pred             hcccccccCccEEEEEEeCCCh---hHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC------------ChHH-
Q 028884           98 ALAPLYYRGAAVAVVVYDITSP---DSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV------------PAQD-  161 (202)
Q Consensus        98 ~~~~~~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~------------~~~~-  161 (202)
                      .++..+++.+|++++|+|+++.   .+++.+    ..+..   .++|+++++||+|+......            .... 
T Consensus        84 ~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i----~~l~~---~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~~~v  156 (590)
T TIGR00491        84 NLRKRGGALADLAILIVDINEGFKPQTQEAL----NILRM---YKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQEIQV  156 (590)
T ss_pred             HHHHHHHhhCCEEEEEEECCcCCCHhHHHHH----HHHHH---cCCCEEEEEECCCccchhhhccCchHHHHHHhhhHHH
Confidence            9888899999999999999974   333322    22222   36899999999998642110            0000 


Q ss_pred             -----------HHHHHHH--------------cCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          162 -----------GIEYAEK--------------NGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       162 -----------~~~~~~~--------------~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                                 ..++...              ...+++++||++|+|+++++.+|..
T Consensus       157 ~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~  213 (590)
T TIGR00491       157 QQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAG  213 (590)
T ss_pred             HHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHH
Confidence                       0011110              1357999999999999999998864

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.

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

Probab=99.80  E-value=1.6e-21  Score=134.50  Aligned_cols=170  Identities=28%  Similarity=0.532  Sum_probs=144.4

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      +.-..+++|+|.-|+|||+++.++....+...+..+++.++..+...+.+...+++++||..|++++..+.+.|++.+.+
T Consensus        22 r~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~  101 (229)
T KOG4423|consen   22 REHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHG  101 (229)
T ss_pred             hhhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcc
Confidence            45689999999999999999999999888888888888888777777777777899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHc----CCCCCeEEEEEeCCCCCCCCCCC-hHHHHHHHHHcCCe-EEEeccCCCCC
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKH----GSPDIVMALVGNKADLHEKREVP-AQDGIEYAEKNGMF-FIETSAKTADN  183 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~----~~~~~p~ivv~nK~D~~~~~~~~-~~~~~~~~~~~~~~-~~~~s~~~~~~  183 (202)
                      .++|||.++..+|+....|.+.+-..    .....|+++..||||........ ......++++++.. .+++|++.+.|
T Consensus       102 ~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtets~Kenkn  181 (229)
T KOG4423|consen  102 AFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTETSAKENKN  181 (229)
T ss_pred             eEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeeeccccccC
Confidence            99999999999999999999876432    23357789999999965432222 35667788888765 99999999999


Q ss_pred             HHHHHHHHHHHcCCCC
Q 028884          184 INQLFEEIAKRLPRPS  199 (202)
Q Consensus       184 i~~~~~~l~~~i~~~~  199 (202)
                      ++++-..|++++..+.
T Consensus       182 i~Ea~r~lVe~~lvnd  197 (229)
T KOG4423|consen  182 IPEAQRELVEKILVND  197 (229)
T ss_pred             hhHHHHHHHHHHHhhc
Confidence            9999999999987654

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.80  E-value=1.4e-18  Score=137.83  Aligned_cols=171  Identities=19%  Similarity=0.191  Sum_probs=129.3

Q ss_pred             CCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCC---------------CCCCccccceeEEEEEEEecCCcEEEEEEEeC
Q 028884           26 SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQF---------------DPTSKVTVGASFLSQTIALQDSTTVKFEIWDT   90 (202)
Q Consensus        26 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~   90 (202)
                      ...+.++.-|+.|+.+...|||||..+|+..--               .......++.......+.+.++..+.++++||
T Consensus        53 ~~~P~~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDT  132 (650)
T KOG0462|consen   53 SLDPVENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDT  132 (650)
T ss_pred             ccCchhhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecC
Confidence            334556788999999999999999999986311               11122334444444445555577789999999


Q ss_pred             CChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC-hHHHHHHHHHc
Q 028884           91 AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP-AQDGIEYAEKN  169 (202)
Q Consensus        91 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~-~~~~~~~~~~~  169 (202)
                      ||+..|.....+.+..+|++|+|+|++.+-.-+....++..+..    +..+|.|+||+|++..+... ..+........
T Consensus       133 PGHvDFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe~----~L~iIpVlNKIDlp~adpe~V~~q~~~lF~~~  208 (650)
T KOG0462|consen  133 PGHVDFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFEA----GLAIIPVLNKIDLPSADPERVENQLFELFDIP  208 (650)
T ss_pred             CCcccccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHHc----CCeEEEeeeccCCCCCCHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999998655666666666643    67799999999987654322 23333344445


Q ss_pred             CCeEEEeccCCCCCHHHHHHHHHHHcCCCCC
Q 028884          170 GMFFIETSAKTADNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       170 ~~~~~~~s~~~~~~i~~~~~~l~~~i~~~~~  200 (202)
                      ..+++.+||++|.|+.++++++++.++.|+-
T Consensus       209 ~~~~i~vSAK~G~~v~~lL~AII~rVPpP~~  239 (650)
T KOG0462|consen  209 PAEVIYVSAKTGLNVEELLEAIIRRVPPPKG  239 (650)
T ss_pred             ccceEEEEeccCccHHHHHHHHHhhCCCCCC
Confidence            5579999999999999999999999998864

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

Probab=99.80  E-value=6.9e-19  Score=116.39  Aligned_cols=159  Identities=18%  Similarity=0.256  Sum_probs=118.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .++++|+++|-.++|||||+..|.+... ....++.+..  .+.+.+ .+. +.+.+||.+|+...+..|..|+.+.|++
T Consensus        15 ~rEirilllGldnAGKTT~LKqL~sED~-~hltpT~GFn--~k~v~~-~g~-f~LnvwDiGGqr~IRpyWsNYyenvd~l   89 (185)
T KOG0074|consen   15 RREIRILLLGLDNAGKTTFLKQLKSEDP-RHLTPTNGFN--TKKVEY-DGT-FHLNVWDIGGQRGIRPYWSNYYENVDGL   89 (185)
T ss_pred             cceEEEEEEecCCCcchhHHHHHccCCh-hhccccCCcc--eEEEee-cCc-EEEEEEecCCccccchhhhhhhhccceE
Confidence            5789999999999999999999988553 2223344443  333433 233 7899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHH-HHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH-----HcCCeEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKAQYWVKEL-QKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAE-----KNGMFFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i-~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~~~~~i  184 (202)
                      |||+|.++..-|+++.+.+-.+ ....-..+|+.+..||.|+.....+  ++......     .....+-+||+..++++
T Consensus        90 IyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa~~--eeia~klnl~~lrdRswhIq~csals~eg~  167 (185)
T KOG0074|consen   90 IYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAAKV--EEIALKLNLAGLRDRSWHIQECSALSLEGS  167 (185)
T ss_pred             EEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhcch--HHHHHhcchhhhhhceEEeeeCccccccCc
Confidence            9999999988888886655444 4445567999999999997654322  22222111     22345788999999999


Q ss_pred             HHHHHHHHHHcC
Q 028884          185 NQLFEEIAKRLP  196 (202)
Q Consensus       185 ~~~~~~l~~~i~  196 (202)
                      .+-.+|+.....
T Consensus       168 ~dg~~wv~sn~~  179 (185)
T KOG0074|consen  168 TDGSDWVQSNPE  179 (185)
T ss_pred             cCcchhhhcCCC
Confidence            999999877655

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.80  E-value=3.1e-18  Score=121.03  Aligned_cols=151  Identities=22%  Similarity=0.244  Sum_probs=95.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChh----------hhhhcccccc
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE----------RYAALAPLYY  104 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~~~~~~~  104 (202)
                      .|+++|.+|+|||||++.+.++........+.+.......+....    .+.+||+||..          .+......++
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~----~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~   76 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND----KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYL   76 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC----eEEEecCCCccccccCHHHHHHHHHHHHHHH
Confidence            489999999999999999996544444443333333222232221    79999999942          2333333333


Q ss_pred             c---CccEEEEEEeCCChhH--HHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC--hHHHHHHHH--HcCCeEEE
Q 028884          105 R---GAAVAVVVYDITSPDS--FNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP--AQDGIEYAE--KNGMFFIE  175 (202)
Q Consensus       105 ~---~~d~~i~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~--~~~~~~~~  175 (202)
                      .   ..+++++++|.....+  ...+.+|+.   ..   +.|+++++||+|+.......  ........+  ....++++
T Consensus        77 ~~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~---~~---~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  150 (170)
T cd01876          77 ENRENLKGVVLLIDSRHGPTEIDLEMLDWLE---EL---GIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIIL  150 (170)
T ss_pred             HhChhhhEEEEEEEcCcCCCHhHHHHHHHHH---Hc---CCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEE
Confidence            3   3578899999986532  222333333   22   57899999999985432211  112222222  34567999


Q ss_pred             eccCCCCCHHHHHHHHHHHc
Q 028884          176 TSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       176 ~s~~~~~~i~~~~~~l~~~i  195 (202)
                      +|++++.++.+++++|.+.+
T Consensus       151 ~Sa~~~~~~~~l~~~l~~~~  170 (170)
T cd01876         151 FSSLKGQGIDELRALIEKWL  170 (170)
T ss_pred             EecCCCCCHHHHHHHHHHhC
Confidence            99999999999999998764

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.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.79  E-value=9e-18  Score=125.16  Aligned_cols=112  Identities=14%  Similarity=0.099  Sum_probs=78.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCC------------------CccccceeEEEEEEEecCCcEEEEEEEeCCChhhh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPT------------------SKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY   96 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   96 (202)
                      +|+++|+.|+|||||+++|+...-...                  .....+.......+.+  +. ..+.+|||||+..|
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~--~~-~~i~liDTPG~~~f   77 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQW--ED-TKVNLIDTPGHMDF   77 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEE--CC-EEEEEEeCCCccch
Confidence            589999999999999999986321000                  0001111122222222  22 68999999999998


Q ss_pred             hhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           97 AALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        97 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      ...+..+++.+|++++|+|.+++... ....++..+...   ++|+++++||+|+..
T Consensus        78 ~~~~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~~---~~P~iivvNK~D~~~  130 (237)
T cd04168          78 IAEVERSLSVLDGAILVISAVEGVQA-QTRILWRLLRKL---NIPTIIFVNKIDRAG  130 (237)
T ss_pred             HHHHHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHHc---CCCEEEEEECccccC
Confidence            88888899999999999999987433 334555555443   688999999999863

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.

>cd04167 Snu114p Snu114p subfamily

Probab=99.79  E-value=1.8e-18  Score=127.41  Aligned_cols=159  Identities=17%  Similarity=0.176  Sum_probs=101.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCC-----------------ccc--cceeEEEEEEEec--CCcEEEEEEEeCCCh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTS-----------------KVT--VGASFLSQTIALQ--DSTTVKFEIWDTAGQ   93 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~-----------------~~~--~~~~~~~~~~~~~--~~~~~~~~i~D~~G~   93 (202)
                      +|+|+|+.++|||||+++|+........                 ...  .+.......+.+.  ++..+.+.+|||||+
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~   81 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGH   81 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCC
Confidence            6899999999999999999875432210                 000  1111111112121  244588999999999


Q ss_pred             hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC-CC-----------hHH
Q 028884           94 ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE-VP-----------AQD  161 (202)
Q Consensus        94 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~-~~-----------~~~  161 (202)
                      ..+......++..+|++++|+|+.+..+... ..++.....   .+.|+++|+||+|+...+. ..           ..+
T Consensus        82 ~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~---~~~p~iiviNK~D~~~~~~~l~~~~~~~~l~~~i~~  157 (213)
T cd04167          82 VNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL---EGLPIVLVINKIDRLILELKLPPNDAYFKLRHIIDE  157 (213)
T ss_pred             cchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECcccCcccccCCHHHHHHHHHHHHHH
Confidence            9888788888899999999999987755432 344444433   2589999999999752110 00           111


Q ss_pred             HHHHHHHcC-------Ce----EEEeccCCCCCHH--------HHHHHHHHHcCC
Q 028884          162 GIEYAEKNG-------MF----FIETSAKTADNIN--------QLFEEIAKRLPR  197 (202)
Q Consensus       162 ~~~~~~~~~-------~~----~~~~s~~~~~~i~--------~~~~~l~~~i~~  197 (202)
                      ....+....       .|    +++.|++.++.+.        .+++.|.+.+..
T Consensus       158 ~n~~~~~~~~~~~~~~~p~~~nv~~~s~~~~w~~~~~~~~~~~~~~~~~~~~~~~  212 (213)
T cd04167         158 VNNIIASFSTTLSFLFSPENGNVCFASSKFGFCFTLESFAKKYGLVDSIVSNIPS  212 (213)
T ss_pred             HHHHHHHhcCCCceEeccCCCeEEEEecCCCeEEecHHHHhhhhHHHHHHhhCCC
Confidence            122222222       22    6788999998776        777777776654

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.

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

Probab=99.79  E-value=7.6e-19  Score=121.76  Aligned_cols=163  Identities=30%  Similarity=0.567  Sum_probs=137.5

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...++++++|..|.||||++++.+.+.+...+.++.+.......+....+ .+++..|||.|++.+..+..-++=.+..+
T Consensus         8 ~~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g-~irf~~wdtagqEk~gglrdgyyI~~qcA   86 (216)
T KOG0096|consen    8 GLTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRG-QIRFNVWDTAGQEKKGGLRDGYYIQGQCA   86 (216)
T ss_pred             cceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccC-cEEEEeeecccceeecccccccEEeccee
Confidence            35799999999999999999999999999999998888886655554444 59999999999999998888888889999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |++||.....++..+..|...+.+.+. ++|+++.+||.|.....  .......+.+...+.+|++|++.+.|...-|.|
T Consensus        87 iimFdVtsr~t~~n~~rwhrd~~rv~~-NiPiv~cGNKvDi~~r~--~k~k~v~~~rkknl~y~~iSaksn~NfekPFl~  163 (216)
T KOG0096|consen   87 IIMFDVTSRFTYKNVPRWHRDLVRVRE-NIPIVLCGNKVDIKARK--VKAKPVSFHRKKNLQYYEISAKSNYNFERPFLW  163 (216)
T ss_pred             EEEeeeeehhhhhcchHHHHHHHHHhc-CCCeeeeccceeccccc--cccccceeeecccceeEEeecccccccccchHH
Confidence            999999999999999999999887754 49999999999964332  233444555667788999999999999999999


Q ss_pred             HHHHcCC
Q 028884          191 IAKRLPR  197 (202)
Q Consensus       191 l~~~i~~  197 (202)
                      ++..+--
T Consensus       164 LarKl~G  170 (216)
T KOG0096|consen  164 LARKLTG  170 (216)
T ss_pred             HhhhhcC
Confidence            9987643

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.79  E-value=4e-18  Score=133.55  Aligned_cols=157  Identities=21%  Similarity=0.198  Sum_probs=108.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccc-cceeEEEEEEEecCCcEEEEEEEeCCChhhhhh-----------c
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVT-VGASFLSQTIALQDSTTVKFEIWDTAGQERYAA-----------L   99 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-----------~   99 (202)
                      ..++|+++|.|++|||||+|++++.+.....+.. .+.+.....+.+.+   ..+.++||.|..+-..           .
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~---~~~~liDTAGiRrk~ki~e~~E~~Sv~r  253 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDG---RKYVLIDTAGIRRKGKITESVEKYSVAR  253 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECC---eEEEEEECCCCCcccccccceEEEeehh
Confidence            5799999999999999999999998765444432 33333344444433   4799999999543211           1


Q ss_pred             ccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH-----cCCeEE
Q 028884          100 APLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK-----NGMFFI  174 (202)
Q Consensus       100 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~  174 (202)
                      ....+..+|++++|+|++.+.+-+. .+....+.   ..+.+++||+||+|+.+......++.......     ...+++
T Consensus       254 t~~aI~~a~vvllviDa~~~~~~qD-~~ia~~i~---~~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~  329 (444)
T COG1160         254 TLKAIERADVVLLVIDATEGISEQD-LRIAGLIE---EAGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIV  329 (444)
T ss_pred             hHhHHhhcCEEEEEEECCCCchHHH-HHHHHHHH---HcCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEE
Confidence            2334667999999999999854333 22333333   34678999999999987643433333332222     356799


Q ss_pred             EeccCCCCCHHHHHHHHHHHc
Q 028884          175 ETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       175 ~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      ++||+++.++..+|+.+.+..
T Consensus       330 ~iSA~~~~~i~~l~~~i~~~~  350 (444)
T COG1160         330 FISALTGQGLDKLFEAIKEIY  350 (444)
T ss_pred             EEEecCCCChHHHHHHHHHHH
Confidence            999999999999999887653

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.78  E-value=2.7e-18  Score=134.84  Aligned_cols=161  Identities=22%  Similarity=0.258  Sum_probs=114.3

Q ss_pred             CCCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCcc-ccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh-----
Q 028884           25 GSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA-----   98 (202)
Q Consensus        25 ~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-----   98 (202)
                      ..+.-....++++++|.||+|||||+|.|.+.......+. ..+-+.-...+.+.+   +.+.++||.|..+...     
T Consensus       209 ~~g~ilr~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G---~pv~l~DTAGiRet~d~VE~i  285 (454)
T COG0486         209 KQGKILREGLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNG---IPVRLVDTAGIRETDDVVERI  285 (454)
T ss_pred             hhhhhhhcCceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECC---EEEEEEecCCcccCccHHHHH
Confidence            3444456689999999999999999999999887666554 344455555666655   7899999999654221     


Q ss_pred             ---cccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEE
Q 028884           99 ---LAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIE  175 (202)
Q Consensus        99 ---~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  175 (202)
                         .....++.||.+++|+|.+.+.+-.. ...+.    ....++|+++|.||.|+..+......     ....+.+++.
T Consensus       286 GIeRs~~~i~~ADlvL~v~D~~~~~~~~d-~~~~~----~~~~~~~~i~v~NK~DL~~~~~~~~~-----~~~~~~~~i~  355 (454)
T COG0486         286 GIERAKKAIEEADLVLFVLDASQPLDKED-LALIE----LLPKKKPIIVVLNKADLVSKIELESE-----KLANGDAIIS  355 (454)
T ss_pred             HHHHHHHHHHhCCEEEEEEeCCCCCchhh-HHHHH----hcccCCCEEEEEechhcccccccchh-----hccCCCceEE
Confidence               23345778999999999999632222 11222    22457889999999999876542211     1223446899


Q ss_pred             eccCCCCCHHHHHHHHHHHcCCC
Q 028884          176 TSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       176 ~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      +|++++.|++.+.+.|.+.+...
T Consensus       356 iSa~t~~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         356 ISAKTGEGLDALREAIKQLFGKG  378 (454)
T ss_pred             EEecCccCHHHHHHHHHHHHhhc
Confidence            99999999999999998876543

>PRK12736 elongation factor Tu; Reviewed

Probab=99.78  E-value=1.5e-17  Score=132.67  Aligned_cols=162  Identities=15%  Similarity=0.168  Sum_probs=107.1

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCC----------------CCCccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFD----------------PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      .++.++|+++|+.++|||||+++|++....                .......+.+.  ....+..+. ..+.++|+||+
T Consensus         9 ~k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~--~~~~~~~~~-~~i~~iDtPGh   85 (394)
T PRK12736          9 SKPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINT--AHVEYETEK-RHYAHVDCPGH   85 (394)
T ss_pred             CCCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEE--EeeEecCCC-cEEEEEECCCH
Confidence            456899999999999999999999863110                00112222222  222332222 57899999999


Q ss_pred             hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCCCCCCC---hHHHHHHHHHc
Q 028884           94 ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEKREVP---AQDGIEYAEKN  169 (202)
Q Consensus        94 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~~~~~~---~~~~~~~~~~~  169 (202)
                      ++|.......+..+|++++|+|+..+.. .+..+.+..+...   ++| +++++||+|+.+..+..   ..+...+....
T Consensus        86 ~~f~~~~~~~~~~~d~~llVvd~~~g~~-~~t~~~~~~~~~~---g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~  161 (394)
T PRK12736         86 ADYVKNMITGAAQMDGAILVVAATDGPM-PQTREHILLARQV---GVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEY  161 (394)
T ss_pred             HHHHHHHHHHHhhCCEEEEEEECCCCCc-hhHHHHHHHHHHc---CCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHh
Confidence            9887666666778999999999987532 2223344444433   567 67889999986432211   12333444444


Q ss_pred             C-----CeEEEeccCCCC--------CHHHHHHHHHHHcCCC
Q 028884          170 G-----MFFIETSAKTAD--------NINQLFEEIAKRLPRP  198 (202)
Q Consensus       170 ~-----~~~~~~s~~~~~--------~i~~~~~~l~~~i~~~  198 (202)
                      +     .+++++|+++|.        ++.++++.|.+.+..+
T Consensus       162 ~~~~~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~lp~~  203 (394)
T PRK12736        162 DFPGDDIPVIRGSALKALEGDPKWEDAIMELMDAVDEYIPTP  203 (394)
T ss_pred             CCCcCCccEEEeeccccccCCCcchhhHHHHHHHHHHhCCCC
Confidence            3     579999999983        6889999998887644

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

Probab=99.78  E-value=2e-19  Score=119.20  Aligned_cols=162  Identities=22%  Similarity=0.356  Sum_probs=117.5

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +..+|+++|..|+||++++-++.-+... ...|+++..  ..++.+.+   ..+++||..|+-..+..|+.|+.+.|++|
T Consensus        17 ~e~rililgldGaGkttIlyrlqvgevv-ttkPtigfn--ve~v~yKN---Lk~~vwdLggqtSirPyWRcYy~dt~avI   90 (182)
T KOG0072|consen   17 REMRILILGLDGAGKTTILYRLQVGEVV-TTKPTIGFN--VETVPYKN---LKFQVWDLGGQTSIRPYWRCYYADTDAVI   90 (182)
T ss_pred             cceEEEEeeccCCCeeEEEEEcccCccc-ccCCCCCcC--cccccccc---ccceeeEccCcccccHHHHHHhcccceEE
Confidence            6899999999999999999888766542 223333333  33343333   78999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC---CChHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 028884          112 VVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHEKRE---VPAQDGIEYAEKNGMFFIETSAKTADNINQL  187 (202)
Q Consensus       112 ~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~---~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~  187 (202)
                      +|+|.++.+..... ..++..++..+-.+..++|++||.|......   +.........+..-+.++.+||..|.|++.+
T Consensus        91 yVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~~t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld~~  170 (182)
T KOG0072|consen   91 YVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGALTRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLDPA  170 (182)
T ss_pred             EEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhhhhHHHHHHHhChHHHhhheeEEEeeccccccCCcHH
Confidence            99999998655433 3344444444455677899999999754321   1111122222333467999999999999999


Q ss_pred             HHHHHHHcCCCC
Q 028884          188 FEEIAKRLPRPS  199 (202)
Q Consensus       188 ~~~l~~~i~~~~  199 (202)
                      .+||.+.+++++
T Consensus       171 ~DWL~~~l~~~~  182 (182)
T KOG0072|consen  171 MDWLQRPLKSRQ  182 (182)
T ss_pred             HHHHHHHHhccC
Confidence            999999887653

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.78  E-value=1.6e-17  Score=117.52  Aligned_cols=161  Identities=20%  Similarity=0.202  Sum_probs=108.8

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCC----------hhhhhh
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG----------QERYAA   98 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~   98 (202)
                      +.+....|+++|.+|+|||||||+|++++.......+++.+...-.+.+.+    .+.++|.||          .+.+..
T Consensus        20 P~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~----~~~lVDlPGYGyAkv~k~~~e~w~~   95 (200)
T COG0218          20 PEDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDD----ELRLVDLPGYGYAKVPKEVKEKWKK   95 (200)
T ss_pred             CCCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecC----cEEEEeCCCcccccCCHHHHHHHHH
Confidence            334678999999999999999999999774444444555555444455443    388999999          344555


Q ss_pred             cccccccC---ccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCCh--HHHH-HHHHHcCCe
Q 028884           99 LAPLYYRG---AAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPA--QDGI-EYAEKNGMF  172 (202)
Q Consensus        99 ~~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~-~~~~~~~~~  172 (202)
                      +...|++.   -.++++++|+..+-.-.+ .+.++.+...   ++|++|++||+|.....+...  .... .+.......
T Consensus        96 ~i~~YL~~R~~L~~vvlliD~r~~~~~~D-~em~~~l~~~---~i~~~vv~tK~DKi~~~~~~k~l~~v~~~l~~~~~~~  171 (200)
T COG0218          96 LIEEYLEKRANLKGVVLLIDARHPPKDLD-REMIEFLLEL---GIPVIVVLTKADKLKKSERNKQLNKVAEELKKPPPDD  171 (200)
T ss_pred             HHHHHHhhchhheEEEEEEECCCCCcHHH-HHHHHHHHHc---CCCeEEEEEccccCChhHHHHHHHHHHHHhcCCCCcc
Confidence            56666654   358888999987632211 3444445543   789999999999877543321  1111 111122222


Q ss_pred             --EEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          173 --FIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       173 --~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                        ++..|+..+.|++++.+.|.+.+.+
T Consensus       172 ~~~~~~ss~~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         172 QWVVLFSSLKKKGIDELKAKILEWLKE  198 (200)
T ss_pred             ceEEEEecccccCHHHHHHHHHHHhhc
Confidence              7888999999999999999988765

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.77  E-value=1.9e-17  Score=137.40  Aligned_cols=156  Identities=20%  Similarity=0.241  Sum_probs=99.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccc----cceeEEEEEEEec-CCcE-----E-----EEEEEeCCChhh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVT----VGASFLSQTIALQ-DSTT-----V-----KFEIWDTAGQER   95 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~----~~~~~~~~~~~~~-~~~~-----~-----~~~i~D~~G~~~   95 (202)
                      .+...|+++|++++|||||+++|.+..........    .+........... .+..     .     .+.+|||||++.
T Consensus         4 ~R~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~   83 (586)
T PRK04004          4 LRQPIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEA   83 (586)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHH
Confidence            45668999999999999999999875432222211    1111111110000 0000     1     278999999999


Q ss_pred             hhhcccccccCccEEEEEEeCCC---hhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC------------hH
Q 028884           96 YAALAPLYYRGAAVAVVVYDITS---PDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP------------AQ  160 (202)
Q Consensus        96 ~~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~------------~~  160 (202)
                      |..++...+..+|++++|+|+++   +.++..+    ..+..   .++|+++++||+|+.......            ..
T Consensus        84 f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i----~~~~~---~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~~~~~  156 (586)
T PRK04004         84 FTNLRKRGGALADIAILVVDINEGFQPQTIEAI----NILKR---RKTPFVVAANKIDRIPGWKSTEDAPFLESIEKQSQ  156 (586)
T ss_pred             HHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHH----HHHHH---cCCCEEEEEECcCCchhhhhhcCchHHHHHhhhhH
Confidence            99888888889999999999997   3444333    22332   378899999999985321100            00


Q ss_pred             -----------HHHHHHHH---------------cCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          161 -----------DGIEYAEK---------------NGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       161 -----------~~~~~~~~---------------~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                                 +...+...               ...+++++|+++|.|++++++.+..
T Consensus       157 ~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~  215 (586)
T PRK04004        157 RVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAG  215 (586)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHH
Confidence                       00001111               1356899999999999999988764

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

Probab=99.77  E-value=2.5e-18  Score=137.37  Aligned_cols=167  Identities=22%  Similarity=0.311  Sum_probs=122.5

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...+||+++|..|+||||||-.|....+.+.-.+-.....-...+.  ... +...++|++..+.-+.....-++.||++
T Consensus         7 ~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i~IPadvt--Pe~-vpt~ivD~ss~~~~~~~l~~EirkA~vi   83 (625)
T KOG1707|consen    7 LKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRILIPADVT--PEN-VPTSIVDTSSDSDDRLCLRKEIRKADVI   83 (625)
T ss_pred             ccceEEEEECCCCccHHHHHHHHHhhhccccccccCCccccCCccC--cCc-CceEEEecccccchhHHHHHHHhhcCEE
Confidence            4579999999999999999999999877544332221111111111  222 4589999987665555556678899999


Q ss_pred             EEEEeCCChhHHHHH-HHHHHHHHHcC--CCCCeEEEEEeCCCCCCCCCCChHH-HHHHHHHc-CC-eEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKA-QYWVKELQKHG--SPDIVMALVGNKADLHEKREVPAQD-GIEYAEKN-GM-FFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~-~~~~~~i~~~~--~~~~p~ivv~nK~D~~~~~~~~~~~-~~~~~~~~-~~-~~~~~s~~~~~~i  184 (202)
                      .++|+.+++.+++.+ .+|+..+++..  ...+|+|+|+||.|.......+.+. ..-+.... .+ ..++|||++-.++
T Consensus        84 ~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiEtciecSA~~~~n~  163 (625)
T KOG1707|consen   84 CLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIETCIECSALTLANV  163 (625)
T ss_pred             EEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhHHHHHHHhhhhhhhhhh
Confidence            999999999999988 78999998874  3679999999999987655443232 22222221 11 2799999999999


Q ss_pred             HHHHHHHHHHcCCCCC
Q 028884          185 NQLFEEIAKRLPRPSP  200 (202)
Q Consensus       185 ~~~~~~l~~~i~~~~~  200 (202)
                      .++|.+....+..+..
T Consensus       164 ~e~fYyaqKaVihPt~  179 (625)
T KOG1707|consen  164 SELFYYAQKAVIHPTS  179 (625)
T ss_pred             HhhhhhhhheeeccCc
Confidence            9999999998887754

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.77  E-value=4.2e-18  Score=125.83  Aligned_cols=146  Identities=20%  Similarity=0.131  Sum_probs=90.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCC--C-----------------------------CCCccccceeEEEEEEEecCCcEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQF--D-----------------------------PTSKVTVGASFLSQTIALQDSTTV   83 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~~   83 (202)
                      +|+++|+.++|||||+.+|+...-  .                             .......+.+.....+.+.   ..
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~---~~   77 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETE---KY   77 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeC---Ce
Confidence            589999999999999999974210  0                             0001112222222233332   26


Q ss_pred             EEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhH------HHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCC--
Q 028884           84 KFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDS------FNKAQYWVKELQKHGSPDIVMALVGNKADLHEKR--  155 (202)
Q Consensus        84 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s------~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~--  155 (202)
                      .+.+||+||+..+...+...+..+|++|+|+|++++..      ..+....+......  ...|+++++||+|+....  
T Consensus        78 ~i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~iiivvNK~Dl~~~~~~  155 (219)
T cd01883          78 RFTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTL--GVKQLIVAVNKMDDVTVNWS  155 (219)
T ss_pred             EEEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHc--CCCeEEEEEEcccccccccc
Confidence            89999999998887767777888999999999998521      11222222223222  236799999999987421  


Q ss_pred             CC----ChHHHHHHHHHc-----CCeEEEeccCCCCCHH
Q 028884          156 EV----PAQDGIEYAEKN-----GMFFIETSAKTADNIN  185 (202)
Q Consensus       156 ~~----~~~~~~~~~~~~-----~~~~~~~s~~~~~~i~  185 (202)
                      ..    ...+...+....     .++++++||++|.|++
T Consensus       156 ~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         156 EERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            11    111222223333     3679999999999986

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

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

Probab=99.77  E-value=8.9e-18  Score=113.76  Aligned_cols=135  Identities=21%  Similarity=0.268  Sum_probs=94.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCC----hhhhhhcccccccCccEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG----QERYAALAPLYYRGAAVA  110 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----~~~~~~~~~~~~~~~d~~  110 (202)
                      ||+++|+.|+|||||+++|.+...  .+..+....+             .=.++||||    +..+..........||++
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~--~~~KTq~i~~-------------~~~~IDTPGEyiE~~~~y~aLi~ta~dad~V   67 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEI--RYKKTQAIEY-------------YDNTIDTPGEYIENPRFYHALIVTAQDADVV   67 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCC--CcCccceeEe-------------cccEEECChhheeCHHHHHHHHHHHhhCCEE
Confidence            799999999999999999998554  2222222211             123589999    333444444455679999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCe-EEEeccCCCCCHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE  189 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~s~~~~~~i~~~~~  189 (202)
                      ++|.|++++.+... ..    +..  ....|+|-|+||+|+... ....+.+.++.+..++. +|.+|+.+|+|++++.+
T Consensus        68 ~ll~dat~~~~~~p-P~----fa~--~f~~pvIGVITK~Dl~~~-~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~  139 (143)
T PF10662_consen   68 LLLQDATEPRSVFP-PG----FAS--MFNKPVIGVITKIDLPSD-DANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKD  139 (143)
T ss_pred             EEEecCCCCCccCC-ch----hhc--ccCCCEEEEEECccCccc-hhhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHH
Confidence            99999998743211 11    111  235789999999998743 33455666777777765 89999999999999999


Q ss_pred             HHH
Q 028884          190 EIA  192 (202)
Q Consensus       190 ~l~  192 (202)
                      +|-
T Consensus       140 ~L~  142 (143)
T PF10662_consen  140 YLE  142 (143)
T ss_pred             HHh
Confidence            875

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

>PRK12735 elongation factor Tu; Reviewed

Probab=99.77  E-value=5.1e-17  Score=129.77  Aligned_cols=162  Identities=15%  Similarity=0.155  Sum_probs=105.1

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCC-------------C---CCCccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQF-------------D---PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~-------------~---~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      ..+.++|+++|++++|||||+++|++...             +   .......+.+...  ..+..+. ..+.++||||+
T Consensus         9 ~~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~--~~~~~~~-~~i~~iDtPGh   85 (396)
T PRK12735          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSH--VEYETAN-RHYAHVDCPGH   85 (396)
T ss_pred             CCCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEee--eEEcCCC-cEEEEEECCCH
Confidence            45689999999999999999999986210             0   0011222222222  2222222 57899999999


Q ss_pred             hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEE-EEEeCCCCCCCCCC---ChHHHHHHHHHc
Q 028884           94 ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMA-LVGNKADLHEKREV---PAQDGIEYAEKN  169 (202)
Q Consensus        94 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~i-vv~nK~D~~~~~~~---~~~~~~~~~~~~  169 (202)
                      .+|.......+..+|++++|+|+.+... .+..+++..+..   .++|.+ +++||+|+.+....   ...+...+....
T Consensus        86 ~~f~~~~~~~~~~aD~~llVvda~~g~~-~qt~e~l~~~~~---~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~  161 (396)
T PRK12735         86 ADYVKNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKY  161 (396)
T ss_pred             HHHHHHHHhhhccCCEEEEEEECCCCCc-hhHHHHHHHHHH---cCCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHc
Confidence            9887666677788999999999987532 222344444443   357755 57999998643211   112334444443


Q ss_pred             -----CCeEEEeccCCCC----------CHHHHHHHHHHHcCCC
Q 028884          170 -----GMFFIETSAKTAD----------NINQLFEEIAKRLPRP  198 (202)
Q Consensus       170 -----~~~~~~~s~~~~~----------~i~~~~~~l~~~i~~~  198 (202)
                           ..+++++|++++.          ++.++++.|...+..+
T Consensus       162 ~~~~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~~~~p  205 (396)
T PRK12735        162 DFPGDDTPIIRGSALKALEGDDDEEWEAKILELMDAVDSYIPEP  205 (396)
T ss_pred             CCCcCceeEEecchhccccCCCCCcccccHHHHHHHHHhcCCCC
Confidence                 2679999999984          6788999988876533

>COG2262 HflX GTPases [General function prediction only]

Probab=99.76  E-value=6e-17  Score=125.30  Aligned_cols=159  Identities=24%  Similarity=0.241  Sum_probs=120.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCCh---------hhhhhccc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ---------ERYAALAP  101 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~---------~~~~~~~~  101 (202)
                      .....|.++|=+|+|||||+|.|.+........-..+.+.+...+.+.++.  .+.+.||.|.         +.|++..+
T Consensus       190 ~~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~g~--~vlLtDTVGFI~~LP~~LV~AFksTLE  267 (411)
T COG2262         190 SGIPLVALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGDGR--KVLLTDTVGFIRDLPHPLVEAFKSTLE  267 (411)
T ss_pred             cCCCeEEEEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCCCc--eEEEecCccCcccCChHHHHHHHHHHH
Confidence            457899999999999999999999866544445555666767777777644  7889999993         33455444


Q ss_pred             ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCC
Q 028884          102 LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTA  181 (202)
Q Consensus       102 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~  181 (202)
                      . ...+|+++.|+|+++|...+.+......+......++|+|+|.||+|+.....     .........-..+.+||++|
T Consensus       268 E-~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~-----~~~~~~~~~~~~v~iSA~~~  341 (411)
T COG2262         268 E-VKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEE-----ILAELERGSPNPVFISAKTG  341 (411)
T ss_pred             H-hhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchh-----hhhhhhhcCCCeEEEEeccC
Confidence            3 45699999999999997777777777777777667799999999999765443     11111122115899999999


Q ss_pred             CCHHHHHHHHHHHcCC
Q 028884          182 DNINQLFEEIAKRLPR  197 (202)
Q Consensus       182 ~~i~~~~~~l~~~i~~  197 (202)
                      .|++.+.+.|.+.+..
T Consensus       342 ~gl~~L~~~i~~~l~~  357 (411)
T COG2262         342 EGLDLLRERIIELLSG  357 (411)
T ss_pred             cCHHHHHHHHHHHhhh
Confidence            9999999999998764

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.76  E-value=2.3e-17  Score=121.95  Aligned_cols=154  Identities=15%  Similarity=0.167  Sum_probs=95.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccc--------------cce---------eEEEEEE------------EecC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVT--------------VGA---------SFLSQTI------------ALQD   79 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~--------------~~~---------~~~~~~~------------~~~~   79 (202)
                      +|+++|+.++|||||+++|..+.+.......              .+.         +.....+            ....
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeee
Confidence            5899999999999999999976553321100              000         0000000            0001


Q ss_pred             CcEEEEEEEeCCChhhhhhccccccc--CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC
Q 028884           80 STTVKFEIWDTAGQERYAALAPLYYR--GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV  157 (202)
Q Consensus        80 ~~~~~~~i~D~~G~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~  157 (202)
                      .....+.++|+||++.|.......+.  .+|++++|+|+..+.. .....++..+...   ++|+++|+||+|+.++...
T Consensus        81 ~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~-~~d~~~l~~l~~~---~ip~ivvvNK~D~~~~~~~  156 (224)
T cd04165          81 KSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGII-GMTKEHLGLALAL---NIPVFVVVTKIDLAPANIL  156 (224)
T ss_pred             eCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCEEEEEECccccCHHHH
Confidence            11257899999999988654444443  6899999999987632 2334455555443   5789999999998643221


Q ss_pred             C--hHHHHHHHH--------------------------HcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          158 P--AQDGIEYAE--------------------------KNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       158 ~--~~~~~~~~~--------------------------~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      .  ..+.....+                          ....+++.+|+.+|.|+++++..|.
T Consensus       157 ~~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~  219 (224)
T cd04165         157 QETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLN  219 (224)
T ss_pred             HHHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHH
Confidence            1  111111111                          1123789999999999999887764

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

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.76  E-value=4.7e-17  Score=130.02  Aligned_cols=160  Identities=14%  Similarity=0.121  Sum_probs=102.1

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCC----------------CCCCccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQF----------------DPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      ..+.++|+++|+.++|||||+++|++...                ........+.+.  ....+... ...+.+|||||+
T Consensus         9 ~~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~--~~~~~~~~-~~~~~liDtpGh   85 (394)
T TIGR00485         9 TKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINT--AHVEYETE-NRHYAHVDCPGH   85 (394)
T ss_pred             CCceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceee--EEEEEcCC-CEEEEEEECCch
Confidence            35689999999999999999999974210                000112223332  22333332 267899999999


Q ss_pred             hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEE-EEEeCCCCCCCCCCC---hHHHHHHHHHc
Q 028884           94 ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMA-LVGNKADLHEKREVP---AQDGIEYAEKN  169 (202)
Q Consensus        94 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~i-vv~nK~D~~~~~~~~---~~~~~~~~~~~  169 (202)
                      +.|.......+..+|++++|+|+..+... +..+.+..+...   ++|.+ +++||+|+.+.....   ..+...+....
T Consensus        86 ~~f~~~~~~~~~~~D~~ilVvda~~g~~~-qt~e~l~~~~~~---gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~  161 (394)
T TIGR00485        86 ADYVKNMITGAAQMDGAILVVSATDGPMP-QTREHILLARQV---GVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEY  161 (394)
T ss_pred             HHHHHHHHHHHhhCCEEEEEEECCCCCcH-HHHHHHHHHHHc---CCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhc
Confidence            98876666666788999999999875322 223344444433   56655 689999986532211   22344555554


Q ss_pred             C-----CeEEEeccCCCC--------CHHHHHHHHHHHcC
Q 028884          170 G-----MFFIETSAKTAD--------NINQLFEEIAKRLP  196 (202)
Q Consensus       170 ~-----~~~~~~s~~~~~--------~i~~~~~~l~~~i~  196 (202)
                      +     ++++++|++++.        ++.++++.|...+.
T Consensus       162 ~~~~~~~~ii~vSa~~g~~g~~~~~~~~~~ll~~l~~~~~  201 (394)
T TIGR00485       162 DFPGDDTPIIRGSALKALEGDAEWEAKILELMDAVDEYIP  201 (394)
T ss_pred             CCCccCccEEECccccccccCCchhHhHHHHHHHHHhcCC
Confidence            4     689999999875        35566666665543

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.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.75  E-value=3e-17  Score=120.86  Aligned_cols=114  Identities=14%  Similarity=0.139  Sum_probs=77.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCC----------------CccccceeEEEEEEEec-------CCcEEEEEEEeCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPT----------------SKVTVGASFLSQTIALQ-------DSTTVKFEIWDTA   91 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~----------------~~~~~~~~~~~~~~~~~-------~~~~~~~~i~D~~   91 (202)
                      +|+++|+.++|||||+++|+...-...                .....+.........+.       ++..+.+.+||||
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTP   81 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSP   81 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCC
Confidence            799999999999999999986421100                00111111111122222       1335789999999


Q ss_pred             ChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 028884           92 GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH  152 (202)
Q Consensus        92 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~  152 (202)
                      |+..|......+++.+|++++|+|+.++.+... ...+.....   .++|+++|+||+|+.
T Consensus        82 G~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t-~~~l~~~~~---~~~p~ilviNKiD~~  138 (222)
T cd01885          82 GHVDFSSEVTAALRLCDGALVVVDAVEGVCVQT-ETVLRQALK---ERVKPVLVINKIDRL  138 (222)
T ss_pred             CccccHHHHHHHHHhcCeeEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECCCcc
Confidence            999999888999999999999999998754433 222232322   357899999999975

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

>CHL00071 tufA elongation factor Tu

Probab=99.75  E-value=6.7e-17  Score=129.62  Aligned_cols=160  Identities=14%  Similarity=0.132  Sum_probs=103.3

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCC----------------CCCccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFD----------------PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      ..+.++|+++|++++|||||+++|++....                .......+.+...  ..+..+. ..+.++|+||+
T Consensus         9 ~~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~--~~~~~~~-~~~~~iDtPGh   85 (409)
T CHL00071          9 KKPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAH--VEYETEN-RHYAHVDCPGH   85 (409)
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccE--EEEccCC-eEEEEEECCCh
Confidence            356799999999999999999999974110                0111222222222  2222222 57889999999


Q ss_pred             hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCCCCCC---ChHHHHHHHHHc
Q 028884           94 ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEKREV---PAQDGIEYAEKN  169 (202)
Q Consensus        94 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~~~~~---~~~~~~~~~~~~  169 (202)
                      ..|.......+..+|++++|+|+..+.. .+..+.+..+...   ++| +++++||+|+.+....   ...+...+.+..
T Consensus        86 ~~~~~~~~~~~~~~D~~ilVvda~~g~~-~qt~~~~~~~~~~---g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~  161 (409)
T CHL00071         86 ADYVKNMITGAAQMDGAILVVSAADGPM-PQTKEHILLAKQV---GVPNIVVFLNKEDQVDDEELLELVELEVRELLSKY  161 (409)
T ss_pred             HHHHHHHHHHHHhCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHh
Confidence            8887666667788999999999987532 2333344444433   567 7788999998653221   112333444433


Q ss_pred             C-----CeEEEeccCCCCC------------------HHHHHHHHHHHcC
Q 028884          170 G-----MFFIETSAKTADN------------------INQLFEEIAKRLP  196 (202)
Q Consensus       170 ~-----~~~~~~s~~~~~~------------------i~~~~~~l~~~i~  196 (202)
                      +     .+++++|+.+|.|                  +..+++.|...+.
T Consensus       162 ~~~~~~~~ii~~Sa~~g~n~~~~~~~~~~~~~~w~~~~~~ll~~l~~~~~  211 (409)
T CHL00071        162 DFPGDDIPIVSGSALLALEALTENPKIKRGENKWVDKIYNLMDAVDSYIP  211 (409)
T ss_pred             CCCCCcceEEEcchhhcccccccCccccccCCchhhhHHHHHHHHHhhCC
Confidence            2     6799999998863                  4667777776653

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.75  E-value=1e-16  Score=127.75  Aligned_cols=156  Identities=16%  Similarity=0.177  Sum_probs=117.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +..=|+++|+...|||||+..+-.........-.++.++....+.+.......+.|+|||||+.|..+...-..-+|++|
T Consensus         4 R~PvVtimGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIaI   83 (509)
T COG0532           4 RPPVVTIMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIAI   83 (509)
T ss_pred             CCCEEEEeCcccCCccchhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEEE
Confidence            45678999999999999999999988777777777777777666665322247999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcC---------CeEEEeccCCCC
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNG---------MFFIETSAKTAD  182 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~s~~~~~  182 (202)
                      ||+|+++.--.+. .+-   +.-....+.|++|++||+|.++...   ........+++         ..++++||++|+
T Consensus        84 LVVa~dDGv~pQT-iEA---I~hak~a~vP~iVAiNKiDk~~~np---~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~  156 (509)
T COG0532          84 LVVAADDGVMPQT-IEA---INHAKAAGVPIVVAINKIDKPEANP---DKVKQELQEYGLVPEEWGGDVIFVPVSAKTGE  156 (509)
T ss_pred             EEEEccCCcchhH-HHH---HHHHHHCCCCEEEEEecccCCCCCH---HHHHHHHHHcCCCHhhcCCceEEEEeeccCCC
Confidence            9999999743222 222   3333355899999999999875332   12222222222         358999999999


Q ss_pred             CHHHHHHHHHHH
Q 028884          183 NINQLFEEIAKR  194 (202)
Q Consensus       183 ~i~~~~~~l~~~  194 (202)
                      |+++++..++-.
T Consensus       157 Gi~eLL~~ill~  168 (509)
T COG0532         157 GIDELLELILLL  168 (509)
T ss_pred             CHHHHHHHHHHH
Confidence            999999988654

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

Probab=99.74  E-value=7.5e-17  Score=131.84  Aligned_cols=157  Identities=19%  Similarity=0.165  Sum_probs=116.2

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh------hhhcccc-cc-
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER------YAALAPL-YY-  104 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~------~~~~~~~-~~-  104 (202)
                      ..+|+++|.||+|||||.|+|++........+..+.+...-.+.+.+   .+++++|.||-=.      -+...+. .+ 
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~~---~~i~ivDLPG~YSL~~~S~DE~Var~~ll~   79 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKG---HEIEIVDLPGTYSLTAYSEDEKVARDFLLE   79 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEecC---ceEEEEeCCCcCCCCCCCchHHHHHHHHhc
Confidence            46699999999999999999999887666777777777666666554   3599999999211      1122222 23 


Q ss_pred             cCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCH
Q 028884          105 RGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       105 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i  184 (202)
                      ...|++|-|+|+++-+.  ++.-.++ +.   .-+.|++++.|+.|..+.+- ...+..++.+.+++|+++++|++|.|+
T Consensus        80 ~~~D~ivnVvDAtnLeR--nLyltlQ-Ll---E~g~p~ilaLNm~D~A~~~G-i~ID~~~L~~~LGvPVv~tvA~~g~G~  152 (653)
T COG0370          80 GKPDLIVNVVDATNLER--NLYLTLQ-LL---ELGIPMILALNMIDEAKKRG-IRIDIEKLSKLLGVPVVPTVAKRGEGL  152 (653)
T ss_pred             CCCCEEEEEcccchHHH--HHHHHHH-HH---HcCCCeEEEeccHhhHHhcC-CcccHHHHHHHhCCCEEEEEeecCCCH
Confidence            34699999999998531  2222222 23   23788999999999766544 345677888899999999999999999


Q ss_pred             HHHHHHHHHHcCCCC
Q 028884          185 NQLFEEIAKRLPRPS  199 (202)
Q Consensus       185 ~~~~~~l~~~i~~~~  199 (202)
                      +++.+.+.+....+.
T Consensus       153 ~~l~~~i~~~~~~~~  167 (653)
T COG0370         153 EELKRAIIELAESKT  167 (653)
T ss_pred             HHHHHHHHHhccccc
Confidence            999999988766554

>PLN03126 Elongation factor Tu; Provisional

Probab=99.74  E-value=1.1e-16  Score=129.87  Aligned_cols=147  Identities=14%  Similarity=0.060  Sum_probs=95.5

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCC----------------CCCCccccceeEEEEEEEecCCcEEEEEEEeCCC
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQF----------------DPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG   92 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   92 (202)
                      ...+.++|+++|++++|||||+++|+....                ........+.+.....+..  .. ..+.++|+||
T Consensus        77 ~~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~--~~-~~i~liDtPG  153 (478)
T PLN03126         77 RKKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYET--EN-RHYAHVDCPG  153 (478)
T ss_pred             ccCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEec--CC-cEEEEEECCC
Confidence            346789999999999999999999996211                0111122222222222222  22 5789999999


Q ss_pred             hhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCCCCCC---ChHHHHHHHHH
Q 028884           93 QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEKREV---PAQDGIEYAEK  168 (202)
Q Consensus        93 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~~~~~---~~~~~~~~~~~  168 (202)
                      ++.|-......+..+|++++|+|+.++... +..+++..+...   ++| +++++||+|+....+.   ...+...+...
T Consensus       154 h~~f~~~~~~g~~~aD~ailVVda~~G~~~-qt~e~~~~~~~~---gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~  229 (478)
T PLN03126        154 HADYVKNMITGAAQMDGAILVVSGADGPMP-QTKEHILLAKQV---GVPNMVVFLNKQDQVDDEELLELVELEVRELLSS  229 (478)
T ss_pred             HHHHHHHHHHHHhhCCEEEEEEECCCCCcH-HHHHHHHHHHHc---CCCeEEEEEecccccCHHHHHHHHHHHHHHHHHh
Confidence            999877667777889999999999976432 234444444433   567 7788999998653221   11233334333


Q ss_pred             c-----CCeEEEeccCCCC
Q 028884          169 N-----GMFFIETSAKTAD  182 (202)
Q Consensus       169 ~-----~~~~~~~s~~~~~  182 (202)
                      .     ..+++++|+.++.
T Consensus       230 ~g~~~~~~~~vp~Sa~~g~  248 (478)
T PLN03126        230 YEFPGDDIPIISGSALLAL  248 (478)
T ss_pred             cCCCcCcceEEEEEccccc
Confidence            2     4679999998875

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

Probab=99.74  E-value=7.6e-17  Score=126.34  Aligned_cols=164  Identities=18%  Similarity=0.182  Sum_probs=122.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCC---------------CCCCCccccce--eEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQ---------------FDPTSKVTVGA--SFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~---------------~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      ++.-|..++.+-..|||||..|++..-               .+......++.  ......+...++..+.++++||||+
T Consensus         7 ~~IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGH   86 (603)
T COG0481           7 KNIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGH   86 (603)
T ss_pred             hhccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCCc
Confidence            445677889999999999999997631               11122222333  3333344445667799999999999


Q ss_pred             hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC--
Q 028884           94 ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM--  171 (202)
Q Consensus        94 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~--  171 (202)
                      ..|.....+.+..|.++++++|++.+-.-+.+.+.|..+..    +.-++.|+||+|++......  -..+.....++  
T Consensus        87 VDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle~----~LeIiPViNKIDLP~Adper--vk~eIe~~iGid~  160 (603)
T COG0481          87 VDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALEN----NLEIIPVLNKIDLPAADPER--VKQEIEDIIGIDA  160 (603)
T ss_pred             cceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHHc----CcEEEEeeecccCCCCCHHH--HHHHHHHHhCCCc
Confidence            99988888889999999999999999777778888887754    56699999999998654322  22222233333  


Q ss_pred             -eEEEeccCCCCCHHHHHHHHHHHcCCCCC
Q 028884          172 -FFIETSAKTADNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       172 -~~~~~s~~~~~~i~~~~~~l~~~i~~~~~  200 (202)
                       ..+.+||++|.|+.++++.|++.+..|+.
T Consensus       161 ~dav~~SAKtG~gI~~iLe~Iv~~iP~P~g  190 (603)
T COG0481         161 SDAVLVSAKTGIGIEDVLEAIVEKIPPPKG  190 (603)
T ss_pred             chheeEecccCCCHHHHHHHHHhhCCCCCC
Confidence             38999999999999999999999998864

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.74  E-value=1.2e-16  Score=120.22  Aligned_cols=160  Identities=19%  Similarity=0.196  Sum_probs=108.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh--------hhhccccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER--------YAALAPLY  103 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~  103 (202)
                      ....|+|.|.||+|||||++.+.+.+.....+|..+.....-.+.   ....+++++||||.-.        ........
T Consensus       167 ~~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK~i~vGhfe---~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~A  243 (346)
T COG1084         167 DLPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFE---RGYLRIQVIDTPGLLDRPLEERNEIERQAILA  243 (346)
T ss_pred             CCCeEEEecCCCCcHHHHHHHHhcCCCccCCCCccccceeEeeee---cCCceEEEecCCcccCCChHHhcHHHHHHHHH
Confidence            467899999999999999999999876555554444444333333   3336899999999321        11111122


Q ss_pred             cc-CccEEEEEEeCC--ChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc-CCeEEEeccC
Q 028884          104 YR-GAAVAVVVYDIT--SPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN-GMFFIETSAK  179 (202)
Q Consensus       104 ~~-~~d~~i~v~d~~--~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~s~~  179 (202)
                      ++ -.++++|+||.+  ++-+++.....++.+...-  +.|+++|+||.|....+...  ++....... +.....+++.
T Consensus       244 L~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f--~~p~v~V~nK~D~~~~e~~~--~~~~~~~~~~~~~~~~~~~~  319 (346)
T COG1084         244 LRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELF--KAPIVVVINKIDIADEEKLE--EIEASVLEEGGEEPLKISAT  319 (346)
T ss_pred             HHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhc--CCCeEEEEecccccchhHHH--HHHHHHHhhccccccceeee
Confidence            22 358999999998  4567888888888887764  48999999999987544332  222223333 3336778888


Q ss_pred             CCCCHHHHHHHHHHHcCCC
Q 028884          180 TADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i~~~  198 (202)
                      .+.+++.+-..+.....+.
T Consensus       320 ~~~~~d~~~~~v~~~a~~~  338 (346)
T COG1084         320 KGCGLDKLREEVRKTALEP  338 (346)
T ss_pred             ehhhHHHHHHHHHHHhhch
Confidence            8888887777776665443

>PRK00049 elongation factor Tu; Reviewed

Probab=99.74  E-value=3e-16  Score=125.34  Aligned_cols=162  Identities=14%  Similarity=0.143  Sum_probs=105.3

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCC----------------CCCccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFD----------------PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      ..+.++|+++|+.++|||||+++|++....                .......+.+..  ...+.... ..+.++||||+
T Consensus         9 ~~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~--~~~~~~~~-~~i~~iDtPG~   85 (396)
T PRK00049          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTA--HVEYETEK-RHYAHVDCPGH   85 (396)
T ss_pred             CCCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeee--EEEEcCCC-eEEEEEECCCH
Confidence            356899999999999999999999873110                001122222222  22232222 57899999999


Q ss_pred             hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEE-EEEeCCCCCCCCCC---ChHHHHHHHHHc
Q 028884           94 ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMA-LVGNKADLHEKREV---PAQDGIEYAEKN  169 (202)
Q Consensus        94 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~i-vv~nK~D~~~~~~~---~~~~~~~~~~~~  169 (202)
                      .+|.......+..+|++++|+|+..+.. .+..+++..+...   ++|.+ +++||+|+.+....   ...+...+....
T Consensus        86 ~~f~~~~~~~~~~aD~~llVVDa~~g~~-~qt~~~~~~~~~~---g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~  161 (396)
T PRK00049         86 ADYVKNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQV---GVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKY  161 (396)
T ss_pred             HHHHHHHHhhhccCCEEEEEEECCCCCc-hHHHHHHHHHHHc---CCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhc
Confidence            8887666677889999999999987632 2333444444433   57765 57999998642221   111233333332


Q ss_pred             -----CCeEEEeccCCCC----------CHHHHHHHHHHHcCCC
Q 028884          170 -----GMFFIETSAKTAD----------NINQLFEEIAKRLPRP  198 (202)
Q Consensus       170 -----~~~~~~~s~~~~~----------~i~~~~~~l~~~i~~~  198 (202)
                           ..+++++|++++.          ++.++++.|.+.+..+
T Consensus       162 ~~~~~~~~iv~iSa~~g~~~~~~~~w~~~~~~ll~~l~~~~~~p  205 (396)
T PRK00049        162 DFPGDDTPIIRGSALKALEGDDDEEWEKKILELMDAVDSYIPTP  205 (396)
T ss_pred             CCCccCCcEEEeecccccCCCCcccccccHHHHHHHHHhcCCCC
Confidence                 3678999999875          5778888888776533

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.73  E-value=6.5e-17  Score=117.65  Aligned_cols=160  Identities=16%  Similarity=0.185  Sum_probs=95.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccce-eEEEEEEEecCCcEEEEEEEeCCChhhhhh-----cccccccC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGA-SFLSQTIALQDSTTVKFEIWDTAGQERYAA-----LAPLYYRG  106 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-----~~~~~~~~  106 (202)
                      .++|+++|.+|+|||||+|.|.+............. ........+.......+.+||+||......     +....+..
T Consensus         1 ~~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~l~l~DtpG~~~~~~~~~~~l~~~~~~~   80 (197)
T cd04104           1 PLNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHPKFPNVTLWDLPGIGSTAFPPDDYLEEMKFSE   80 (197)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecCCCCCceEEeCCCCCcccCCHHHHHHHhCccC
Confidence            378999999999999999999985543222211111 011111111111123689999999643211     12223567


Q ss_pred             ccEEEEEEeCCChhHHHH-HHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC-----------CChHHHHHHHH----H--
Q 028884          107 AAVAVVVYDITSPDSFNK-AQYWVKELQKHGSPDIVMALVGNKADLHEKRE-----------VPAQDGIEYAE----K--  168 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~-----------~~~~~~~~~~~----~--  168 (202)
                      +|+++++.+.  +  +.. ...|++.+...   +.|+++|+||+|+.....           ...++.++.+.    .  
T Consensus        81 ~d~~l~v~~~--~--~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~  153 (197)
T cd04104          81 YDFFIIISST--R--FSSNDVKLAKAIQCM---GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAG  153 (197)
T ss_pred             cCEEEEEeCC--C--CCHHHHHHHHHHHHh---CCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcC
Confidence            8998888542  2  222 24455556554   578999999999843211           01111222222    1  


Q ss_pred             -cCCeEEEeccC--CCCCHHHHHHHHHHHcCCCC
Q 028884          169 -NGMFFIETSAK--TADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       169 -~~~~~~~~s~~--~~~~i~~~~~~l~~~i~~~~  199 (202)
                       ...+++.+|+.  .++++..+.+.|...+.+.+
T Consensus       154 ~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~  187 (197)
T cd04104         154 VSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAHK  187 (197)
T ss_pred             CCCCCEEEEeCCChhhcChHHHHHHHHHHhhHHH
Confidence             12358999998  67999999999999887654

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

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.73  E-value=3e-16  Score=124.80  Aligned_cols=162  Identities=16%  Similarity=0.159  Sum_probs=123.4

Q ss_pred             CCCCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhccccc
Q 028884           24 AGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLY  103 (202)
Q Consensus        24 ~~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~  103 (202)
                      ..++...++..-|.|+|+...|||||+..|-.........-.++..+....+..+.+.  .+.|.||||+..|..+...-
T Consensus       144 a~p~~l~~RpPVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p~G~--~iTFLDTPGHaAF~aMRaRG  221 (683)
T KOG1145|consen  144 ADPKLLEPRPPVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLPSGK--SITFLDTPGHAAFSAMRARG  221 (683)
T ss_pred             cCHhhcCCCCCeEEEeecccCChhhHHHHHhhCceehhhcCCccceeceEEEecCCCC--EEEEecCCcHHHHHHHHhcc
Confidence            3344444567788999999999999999999988777777777888888888888665  89999999999999999999


Q ss_pred             ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH------Hc--CCeEEE
Q 028884          104 YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAE------KN--GMFFIE  175 (202)
Q Consensus       104 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~------~~--~~~~~~  175 (202)
                      ...+|++++|+.+.|+--.+. .   +.|.-....+.|++|++||+|.++..  ......++..      .+  +..+++
T Consensus       222 A~vtDIvVLVVAadDGVmpQT-~---EaIkhAk~A~VpiVvAinKiDkp~a~--pekv~~eL~~~gi~~E~~GGdVQvip  295 (683)
T KOG1145|consen  222 ANVTDIVVLVVAADDGVMPQT-L---EAIKHAKSANVPIVVAINKIDKPGAN--PEKVKRELLSQGIVVEDLGGDVQVIP  295 (683)
T ss_pred             CccccEEEEEEEccCCccHhH-H---HHHHHHHhcCCCEEEEEeccCCCCCC--HHHHHHHHHHcCccHHHcCCceeEEE
Confidence            999999999999998732222 2   33444445689999999999976432  1222222222      12  346899


Q ss_pred             eccCCCCCHHHHHHHHHH
Q 028884          176 TSAKTADNINQLFEEIAK  193 (202)
Q Consensus       176 ~s~~~~~~i~~~~~~l~~  193 (202)
                      +||++|.|++.+-+++.-
T Consensus       296 iSAl~g~nl~~L~eaill  313 (683)
T KOG1145|consen  296 ISALTGENLDLLEEAILL  313 (683)
T ss_pred             eecccCCChHHHHHHHHH
Confidence            999999999998887754

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.72  E-value=1.4e-16  Score=128.53  Aligned_cols=148  Identities=18%  Similarity=0.197  Sum_probs=98.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCC--C-----------------------------CCCccccceeEEEEEEEecC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQF--D-----------------------------PTSKVTVGASFLSQTIALQD   79 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~   79 (202)
                      .+.++|+++|+.++|||||+.+|+...-  .                             .......+.+.....+.   
T Consensus         5 k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~---   81 (447)
T PLN00043          5 KVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFE---   81 (447)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEec---
Confidence            5679999999999999999999875210  0                             00111122222222222   


Q ss_pred             CcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHH-------HHHHHHHHHHHHcCCCCCe-EEEEEeCCCC
Q 028884           80 STTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSF-------NKAQYWVKELQKHGSPDIV-MALVGNKADL  151 (202)
Q Consensus        80 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~-------~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~  151 (202)
                      .....+.++|+||+++|.......+..+|++|+|+|+++. .|       .+..+.+..+...   ++| ++|++||+|+
T Consensus        82 ~~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G-~~e~g~~~~~qT~eh~~~~~~~---gi~~iIV~vNKmD~  157 (447)
T PLN00043         82 TTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTG-GFEAGISKDGQTREHALLAFTL---GVKQMICCCNKMDA  157 (447)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccC-ceecccCCCchHHHHHHHHHHc---CCCcEEEEEEcccC
Confidence            2237899999999999988888889999999999999874 12       2333333333333   554 7888999997


Q ss_pred             CCCC------CCChHHHHHHHHHcC-----CeEEEeccCCCCCHH
Q 028884          152 HEKR------EVPAQDGIEYAEKNG-----MFFIETSAKTADNIN  185 (202)
Q Consensus       152 ~~~~------~~~~~~~~~~~~~~~-----~~~~~~s~~~~~~i~  185 (202)
                      ....      ....++...+++..+     ++++++|+++|+|+.
T Consensus       158 ~~~~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~  202 (447)
T PLN00043        158 TTPKYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMI  202 (447)
T ss_pred             CchhhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEecccccccc
Confidence            5211      112344555566554     679999999999985

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.72  E-value=5.5e-17  Score=119.44  Aligned_cols=164  Identities=18%  Similarity=0.260  Sum_probs=114.0

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh-------hhhcccc
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER-------YAALAPL  102 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~  102 (202)
                      .+..++|+++|.+|+|||||||+|+++...+...-..+.+.........++.  .+.+||+||..+       ++.....
T Consensus        36 ~~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~~--~l~lwDtPG~gdg~~~D~~~r~~~~d  113 (296)
T COG3596          36 EKEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDGE--NLVLWDTPGLGDGKDKDAEHRQLYRD  113 (296)
T ss_pred             ccCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhcccc--ceEEecCCCcccchhhhHHHHHHHHH
Confidence            4678999999999999999999999877666654444444434333333333  699999999443       7788888


Q ss_pred             cccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCC-------CCChHHH-----------HH
Q 028884          103 YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKR-------EVPAQDG-----------IE  164 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~-------~~~~~~~-----------~~  164 (202)
                      ++...|.+++++++.++.- ..-..++..+... ..+.++++++|++|....-       ......+           .+
T Consensus       114 ~l~~~DLvL~l~~~~draL-~~d~~f~~dVi~~-~~~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~~k~~~~~~  191 (296)
T COG3596         114 YLPKLDLVLWLIKADDRAL-GTDEDFLRDVIIL-GLDKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEEKAEALGR  191 (296)
T ss_pred             HhhhccEEEEeccCCCccc-cCCHHHHHHHHHh-ccCceeEEEEehhhhhccccccccccCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999842 2224444544444 2348899999999975431       0011111           11


Q ss_pred             HHHHcCCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          165 YAEKNGMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       165 ~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      +++. -.+++..+...++|++.+...+++.+..-
T Consensus       192 ~~q~-V~pV~~~~~r~~wgl~~l~~ali~~lp~e  224 (296)
T COG3596         192 LFQE-VKPVVAVSGRLPWGLKELVRALITALPVE  224 (296)
T ss_pred             HHhh-cCCeEEeccccCccHHHHHHHHHHhCccc
Confidence            1111 34588888999999999999999988643

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.71  E-value=2.1e-16  Score=128.50  Aligned_cols=152  Identities=18%  Similarity=0.157  Sum_probs=94.5

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC---------------------------------ccccceeEEEEEEE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS---------------------------------KVTVGASFLSQTIA   76 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~---------------------------------~~~~~~~~~~~~~~   76 (202)
                      ....++|+++|+.++|||||+++|+...-....                                 ....+.+.....+.
T Consensus        24 ~~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~  103 (474)
T PRK05124         24 HKSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFS  103 (474)
T ss_pred             ccCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEec
Confidence            356799999999999999999999864211100                                 01112222222222


Q ss_pred             ecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC
Q 028884           77 LQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE  156 (202)
Q Consensus        77 ~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~  156 (202)
                      .   ....+.++||||++.|.......+..+|++++|+|+..+..-.. ...+..+....  ..|++|++||+|+.+...
T Consensus       104 ~---~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt-~~~~~l~~~lg--~~~iIvvvNKiD~~~~~~  177 (474)
T PRK05124        104 T---EKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQT-RRHSFIATLLG--IKHLVVAVNKMDLVDYSE  177 (474)
T ss_pred             c---CCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccc-hHHHHHHHHhC--CCceEEEEEeeccccchh
Confidence            2   22578999999998886555555788999999999987632211 22222222222  246899999999864322


Q ss_pred             CChHHH----HHHHHHc----CCeEEEeccCCCCCHHHH
Q 028884          157 VPAQDG----IEYAEKN----GMFFIETSAKTADNINQL  187 (202)
Q Consensus       157 ~~~~~~----~~~~~~~----~~~~~~~s~~~~~~i~~~  187 (202)
                      ....+.    ..+....    ..+++++|+++|.|+.+.
T Consensus       178 ~~~~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        178 EVFERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCceEEEEEeecCCCcccc
Confidence            111222    2222222    367999999999998753

>PLN03127 Elongation factor Tu; Provisional

Probab=99.71  E-value=5.6e-16  Score=125.03  Aligned_cols=163  Identities=13%  Similarity=0.134  Sum_probs=101.9

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhC------CC----------CCCCccccceeEEEEEEEecCCcEEEEEEEeCCC
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRG------QF----------DPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG   92 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~------~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   92 (202)
                      ...+.++|+++|+.++|||||+++|.+.      ..          ........+.+.....  +.... ..+.++||||
T Consensus        57 ~~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~--~~~~~-~~i~~iDtPG  133 (447)
T PLN03127         57 RTKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVE--YETAK-RHYAHVDCPG  133 (447)
T ss_pred             cCCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEE--EcCCC-eEEEEEECCC
Confidence            3467899999999999999999999732      10          0111122333332222  22222 6789999999


Q ss_pred             hhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCCCCCCCh---HHHHHHHHH
Q 028884           93 QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEKREVPA---QDGIEYAEK  168 (202)
Q Consensus        93 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~~~~~~~---~~~~~~~~~  168 (202)
                      +..|-......+..+|++++|+|+.++.. .+..+.+..+...   ++| +++++||+|+.+......   .+...+...
T Consensus       134 h~~f~~~~~~g~~~aD~allVVda~~g~~-~qt~e~l~~~~~~---gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l~~  209 (447)
T PLN03127        134 HADYVKNMITGAAQMDGGILVVSAPDGPM-PQTKEHILLARQV---GVPSLVVFLNKVDVVDDEELLELVEMELRELLSF  209 (447)
T ss_pred             ccchHHHHHHHHhhCCEEEEEEECCCCCc-hhHHHHHHHHHHc---CCCeEEEEEEeeccCCHHHHHHHHHHHHHHHHHH
Confidence            98876555555667999999999987632 2233444444433   577 578899999865322111   112222222


Q ss_pred             c-----CCeEEEeccC---CCCC-------HHHHHHHHHHHcCCC
Q 028884          169 N-----GMFFIETSAK---TADN-------INQLFEEIAKRLPRP  198 (202)
Q Consensus       169 ~-----~~~~~~~s~~---~~~~-------i~~~~~~l~~~i~~~  198 (202)
                      .     .++++++|+.   ++.|       +.++++.|.+.+..+
T Consensus       210 ~~~~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~lp~p  254 (447)
T PLN03127        210 YKFPGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEYIPEP  254 (447)
T ss_pred             hCCCCCcceEEEeccceeecCCCcccccchHHHHHHHHHHhCCCC
Confidence            1     3578888765   4555       788899988877544

>cd04169 RF3 RF3 subfamily

Probab=99.71  E-value=1.2e-16  Score=121.06  Aligned_cols=116  Identities=15%  Similarity=0.130  Sum_probs=76.6

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCc---------c-----------ccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSK---------V-----------TVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~---------~-----------~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      -+|+++|++|+|||||+++|+...-.....         .           ..+............+. ..+.+|||||+
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~-~~i~liDTPG~   81 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRD-CVINLLDTPGH   81 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCC-EEEEEEECCCc
Confidence            579999999999999999998521100000         0           00111112222222222 78999999999


Q ss_pred             hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884           94 ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus        94 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                      ..|.......++.+|++|+|+|++++... ....++....   ..++|+++++||+|+...
T Consensus        82 ~df~~~~~~~l~~aD~~IlVvda~~g~~~-~~~~i~~~~~---~~~~P~iivvNK~D~~~a  138 (267)
T cd04169          82 EDFSEDTYRTLTAVDSAVMVIDAAKGVEP-QTRKLFEVCR---LRGIPIITFINKLDREGR  138 (267)
T ss_pred             hHHHHHHHHHHHHCCEEEEEEECCCCccH-HHHHHHHHHH---hcCCCEEEEEECCccCCC
Confidence            98887777788999999999999876322 2233333333   247899999999997554

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.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.70  E-value=4e-16  Score=125.78  Aligned_cols=169  Identities=14%  Similarity=0.117  Sum_probs=108.7

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCC---CCCccccceeEEEEEE---------------EecCC---------
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFD---PTSKVTVGASFLSQTI---------------ALQDS---------   80 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~---------------~~~~~---------   80 (202)
                      ..++..++|.++|+...|||||+..|.+....   .......+.+......               ....+         
T Consensus        29 ~~~~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (460)
T PTZ00327         29 ISRQATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPG  108 (460)
T ss_pred             ccCCCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCccccccccc
Confidence            36678999999999999999999999974321   1111111111100000               00000         


Q ss_pred             -c-----EEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884           81 -T-----TVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus        81 -~-----~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                       .     ...+.++|+||++.|-......+..+|++++|+|+..+....+..+.+..+....  -.+++||+||+|+.+.
T Consensus       109 ~~~~~~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~lg--i~~iIVvlNKiDlv~~  186 (460)
T PTZ00327        109 CGHKMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIMK--LKHIIILQNKIDLVKE  186 (460)
T ss_pred             ccccccccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHcC--CCcEEEEEecccccCH
Confidence             0     1468999999999987766667788999999999997521222333333333332  2458999999998643


Q ss_pred             CCC--ChHHHHHHHHH---cCCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          155 REV--PAQDGIEYAEK---NGMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       155 ~~~--~~~~~~~~~~~---~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      ...  ..++...+...   ...+++++|+++|.|++.+++.|.+.+..+
T Consensus       187 ~~~~~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~lp~~  235 (460)
T PTZ00327        187 AQAQDQYEEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQIPIP  235 (460)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhCCCC
Confidence            221  11222222222   356899999999999999999999877765

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.70  E-value=3.7e-16  Score=116.97  Aligned_cols=156  Identities=18%  Similarity=0.177  Sum_probs=107.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh-------hhhcccccccC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER-------YAALAPLYYRG  106 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~  106 (202)
                      ..|.++|.|++|||||++.+...+.....+...+.....-.+.+.+..  .+.+-|.||.-+       .....-..+..
T Consensus       197 advGLVG~PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG~v~yddf~--q~tVADiPGiI~GAh~nkGlG~~FLrHiER  274 (366)
T KOG1489|consen  197 ADVGLVGFPNAGKSTLLNALSRAKPKVAHYAFTTLRPHIGTVNYDDFS--QITVADIPGIIEGAHMNKGLGYKFLRHIER  274 (366)
T ss_pred             cccceecCCCCcHHHHHHHhhccCCcccccceeeeccccceeeccccc--eeEeccCccccccccccCcccHHHHHHHHh
Confidence            456799999999999999999877543333333333333345554444  589999999432       11122234567


Q ss_pred             ccEEEEEEeCCCh---hHHHHHHHHHHHHHHc--CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCe-EEEeccCC
Q 028884          107 AAVAVVVYDITSP---DSFNKAQYWVKELQKH--GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMF-FIETSAKT  180 (202)
Q Consensus       107 ~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~--~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~s~~~  180 (202)
                      ++.++||+|++.+   ..+++++....++..+  ...+.|.++|+||+|+++.+   .....++...+.-+ ++++||+.
T Consensus       275 ~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~eae---~~~l~~L~~~lq~~~V~pvsA~~  351 (366)
T KOG1489|consen  275 CKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEAE---KNLLSSLAKRLQNPHVVPVSAKS  351 (366)
T ss_pred             hceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhHH---HHHHHHHHHHcCCCcEEEeeecc
Confidence            9999999999987   6666665555555443  34578899999999975321   22235566666544 99999999


Q ss_pred             CCCHHHHHHHHHHH
Q 028884          181 ADNINQLFEEIAKR  194 (202)
Q Consensus       181 ~~~i~~~~~~l~~~  194 (202)
                      ++++.++++.|.+.
T Consensus       352 ~egl~~ll~~lr~~  365 (366)
T KOG1489|consen  352 GEGLEELLNGLREL  365 (366)
T ss_pred             ccchHHHHHHHhhc
Confidence            99999999888654

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.70  E-value=6.3e-16  Score=124.88  Aligned_cols=150  Identities=18%  Similarity=0.164  Sum_probs=96.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC--CCC-----------------------------CCCccccceeEEEEEEEecC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG--QFD-----------------------------PTSKVTVGASFLSQTIALQD   79 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~--~~~-----------------------------~~~~~~~~~~~~~~~~~~~~   79 (202)
                      .+.++|+++|+.++|||||+.+|+..  ...                             .......+.+.....+.+  
T Consensus         5 k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~--   82 (446)
T PTZ00141          5 KTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFET--   82 (446)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEcc--
Confidence            56799999999999999999999762  111                             001112222322222222  


Q ss_pred             CcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhH---H---HHHHHHHHHHHHcCCCCCe-EEEEEeCCCCC
Q 028884           80 STTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDS---F---NKAQYWVKELQKHGSPDIV-MALVGNKADLH  152 (202)
Q Consensus        80 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~---~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~  152 (202)
                       ....+.|+|+||+.+|-......+..+|++++|+|+..+.-   +   .+..+.+..+...   ++| +|+++||+|..
T Consensus        83 -~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~---gi~~iiv~vNKmD~~  158 (446)
T PTZ00141         83 -PKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTL---GVKQMIVCINKMDDK  158 (446)
T ss_pred             -CCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHc---CCCeEEEEEEccccc
Confidence             23689999999999998777778889999999999987631   1   2334444444433   555 67899999953


Q ss_pred             C--CCC----CChHHHHHHHHHc-----CCeEEEeccCCCCCHHH
Q 028884          153 E--KRE----VPAQDGIEYAEKN-----GMFFIETSAKTADNINQ  186 (202)
Q Consensus       153 ~--~~~----~~~~~~~~~~~~~-----~~~~~~~s~~~~~~i~~  186 (202)
                      .  ..+    ....+...+....     .++++++|+.+|.|+.+
T Consensus       159 ~~~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        159 TVNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             cchhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            2  111    1122233333332     36799999999999863

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=99.70  E-value=2.8e-16  Score=115.77  Aligned_cols=160  Identities=20%  Similarity=0.277  Sum_probs=101.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCC-CccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh-----hcccccccCcc
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPT-SKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA-----ALAPLYYRGAA  108 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-----~~~~~~~~~~d  108 (202)
                      ||+++|+.++||||+.+.++++..+.. ..-..+.......+.  ....+.+.+||+||+..+.     ......+++++
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~~~v~--~~~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~   78 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEKSHVR--FLSFLPLNIWDCPGQDDFMENYFNSQREEIFSNVG   78 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEEEEEE--CTTSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTES
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceEEEEe--cCCCcEEEEEEcCCccccccccccccHHHHHhccC
Confidence            799999999999999988887543222 112223333333333  2333689999999986443     34566789999


Q ss_pred             EEEEEEeCCChh---HHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC------ChHHHHHHHHHcC---CeEEEe
Q 028884          109 VAVVVYDITSPD---SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV------PAQDGIEYAEKNG---MFFIET  176 (202)
Q Consensus       109 ~~i~v~d~~~~~---s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~------~~~~~~~~~~~~~---~~~~~~  176 (202)
                      ++|||+|+...+   .+..+...++.+.+. ++++.+.|+++|+|+..+...      ..+.....+...+   +.++.+
T Consensus        79 ~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~-sp~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~T  157 (232)
T PF04670_consen   79 VLIYVFDAQSDDYDEDLAYLSDCIEALRQY-SPNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFLT  157 (232)
T ss_dssp             EEEEEEETT-STCHHHHHHHHHHHHHHHHH-STT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE
T ss_pred             EEEEEEEcccccHHHHHHHHHHHHHHHHHh-CCCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEec
Confidence            999999999433   233444455555555 789999999999998653211      1122333333444   779999


Q ss_pred             ccCCCCCHHHHHHHHHHHcCCC
Q 028884          177 SAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       177 s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      |..+ ..+-++|..+++.+.+.
T Consensus       158 SI~D-~Sly~A~S~Ivq~LiP~  178 (232)
T PF04670_consen  158 SIWD-ESLYEAWSKIVQKLIPN  178 (232)
T ss_dssp             -TTS-THHHHHHHHHHHTTSTT
T ss_pred             cCcC-cHHHHHHHHHHHHHccc
Confidence            9999 68999999999988754

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.

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.69  E-value=8.8e-16  Score=126.03  Aligned_cols=116  Identities=14%  Similarity=0.164  Sum_probs=78.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh--CCCCCC-------------C-------ccccceeEEEEEEEecCCcEEEEEEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR--GQFDPT-------------S-------KVTVGASFLSQTIALQDSTTVKFEIW   88 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~--~~~~~~-------------~-------~~~~~~~~~~~~~~~~~~~~~~~~i~   88 (202)
                      .+..+|+|+|++++|||||+++|+.  +.....             .       ....+.......+.+  +. +.+.+|
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~--~~-~~inli   84 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPY--RD-CLINLL   84 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEE--CC-EEEEEE
Confidence            4567999999999999999999974  111000             0       001111111222332  22 689999


Q ss_pred             eCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           89 DTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        89 D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      ||||+..|......+++.+|++|+|+|+++.... ....++....   ..++|+++++||+|+..
T Consensus        85 DTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~-~t~~l~~~~~---~~~iPiiv~iNK~D~~~  145 (526)
T PRK00741         85 DTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEP-QTRKLMEVCR---LRDTPIFTFINKLDRDG  145 (526)
T ss_pred             ECCCchhhHHHHHHHHHHCCEEEEEEecCCCCCH-HHHHHHHHHH---hcCCCEEEEEECCcccc
Confidence            9999999887777788999999999999876322 2334444333   34789999999999753

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.69  E-value=4.5e-16  Score=124.69  Aligned_cols=147  Identities=22%  Similarity=0.212  Sum_probs=91.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCC---------------------------------ccccceeEEEEEEEecCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTS---------------------------------KVTVGASFLSQTIALQDS   80 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~---------------------------------~~~~~~~~~~~~~~~~~~   80 (202)
                      ++|+++|+.++|||||+++|+...-....                                 ....+.+.....+..  .
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~--~   78 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFST--D   78 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEcc--C
Confidence            58999999999999999999753211000                                 011122222222222  2


Q ss_pred             cEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCCh-
Q 028884           81 TTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPA-  159 (202)
Q Consensus        81 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~-  159 (202)
                       ...+.++||||++.|.......+..+|++++|+|+..+...+ ..+.+..+....  ..++++++||+|+.+...... 
T Consensus        79 -~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~q-t~~~~~~~~~~~--~~~iivviNK~D~~~~~~~~~~  154 (406)
T TIGR02034        79 -KRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQ-TRRHSYIASLLG--IRHVVLAVNKMDLVDYDEEVFE  154 (406)
T ss_pred             -CeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccc-cHHHHHHHHHcC--CCcEEEEEEecccccchHHHHH
Confidence             258899999999988665556788999999999998763222 222223333332  235888999999865322111 


Q ss_pred             ---HHHHHHHHHcC---CeEEEeccCCCCCHHH
Q 028884          160 ---QDGIEYAEKNG---MFFIETSAKTADNINQ  186 (202)
Q Consensus       160 ---~~~~~~~~~~~---~~~~~~s~~~~~~i~~  186 (202)
                         ++...+....+   .+++++|+++|.|+.+
T Consensus       155 ~i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~  187 (406)
T TIGR02034       155 NIKKDYLAFAEQLGFRDVTFIPLSALKGDNVVS  187 (406)
T ss_pred             HHHHHHHHHHHHcCCCCccEEEeecccCCCCcc
Confidence               12222223333   4699999999999875

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).

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.69  E-value=1.1e-16  Score=121.73  Aligned_cols=148  Identities=17%  Similarity=0.185  Sum_probs=91.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCc------------------cccceeEEEEEEEecCCcEEEEEEEeCCChhhh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSK------------------VTVGASFLSQTIALQDSTTVKFEIWDTAGQERY   96 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   96 (202)
                      +|+++|++|+|||||+++|+.........                  ...+.......+.+.  . ..+.+|||||...+
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~--~-~~i~liDtPG~~~f   77 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWK--G-HKINLIDTPGYADF   77 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEEC--C-EEEEEEECcCHHHH
Confidence            58999999999999999998632110000                  011111111222222  2 68999999999888


Q ss_pred             hhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCe--EE
Q 028884           97 AALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMF--FI  174 (202)
Q Consensus        97 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~--~~  174 (202)
                      ...+..+++.+|++++|+|+++.........| ..+..   .++|+++++||+|+....  .......+....+.+  .+
T Consensus        78 ~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~-~~~~~---~~~p~iivvNK~D~~~~~--~~~~~~~l~~~~~~~~~~~  151 (268)
T cd04170          78 VGETRAALRAADAALVVVSAQSGVEVGTEKLW-EFADE---AGIPRIIFINKMDRERAD--FDKTLAALQEAFGRPVVPL  151 (268)
T ss_pred             HHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHH-HHHHH---cCCCEEEEEECCccCCCC--HHHHHHHHHHHhCCCeEEE
Confidence            87888889999999999999987544332222 33332   368999999999976542  122233333334443  34


Q ss_pred             EeccCCCCCHHHHHHHH
Q 028884          175 ETSAKTADNINQLFEEI  191 (202)
Q Consensus       175 ~~s~~~~~~i~~~~~~l  191 (202)
                      .+...++.++..+.+.+
T Consensus       152 ~ip~~~~~~~~~~vd~~  168 (268)
T cd04170         152 QLPIGEGDDFKGVVDLL  168 (268)
T ss_pred             EecccCCCceeEEEEcc
Confidence            44556665554444443

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.69  E-value=8.5e-16  Score=116.55  Aligned_cols=112  Identities=15%  Similarity=0.114  Sum_probs=77.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCC--C----------------CCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQF--D----------------PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY   96 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~--~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   96 (202)
                      +|+++|++++|||||+++|+...-  .                .......+.......+.+.+   ..+.++||||+..+
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~---~~i~liDTPG~~df   77 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKD---HRINIIDTPGHVDF   77 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECC---EEEEEEECCCcHHH
Confidence            589999999999999999975211  0                01111223333333333332   68999999999888


Q ss_pred             hhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           97 AALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        97 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      ...+...++.+|++|+|+|+.+...-. ....+..+..   .++|+++++||+|+.+
T Consensus        78 ~~~~~~~l~~aD~ailVVDa~~g~~~~-t~~~~~~~~~---~~~p~ivviNK~D~~~  130 (270)
T cd01886          78 TIEVERSLRVLDGAVAVFDAVAGVEPQ-TETVWRQADR---YNVPRIAFVNKMDRTG  130 (270)
T ss_pred             HHHHHHHHHHcCEEEEEEECCCCCCHH-HHHHHHHHHH---cCCCEEEEEECCCCCC
Confidence            888888999999999999998763222 2333333433   3688999999999864

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

>cd01850 CDC_Septin CDC/Septin

Probab=99.69  E-value=1.3e-15  Score=115.90  Aligned_cols=143  Identities=17%  Similarity=0.201  Sum_probs=88.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC----------ccccceeEEEEEEEecCCcEEEEEEEeCCChhhh-----
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS----------KVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY-----   96 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-----   96 (202)
                      ..++|+|+|.+|+|||||+|+|++..+....          ..+.........+. .++..+.+.+|||||....     
T Consensus         3 ~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~-~~g~~~~l~iiDTpGfgd~~~~~~   81 (276)
T cd01850           3 FQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIE-ENGVKLKLTVIDTPGFGDNINNSD   81 (276)
T ss_pred             cEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEE-ECCEEEEEEEEecCCccccccchh
Confidence            4689999999999999999999998764332          22222222222333 2455588999999993211     


Q ss_pred             ---------------------hhccccccc--CccEEEEEEeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 028884           97 ---------------------AALAPLYYR--GAAVAVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLH  152 (202)
Q Consensus        97 ---------------------~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~  152 (202)
                                           .......+.  .+|+++|+++.+... +... ...++.+.   . .+|+++|+||+|+.
T Consensus        82 ~~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~-l~~~D~~~lk~l~---~-~v~vi~VinK~D~l  156 (276)
T cd01850          82 CWKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHG-LKPLDIEFMKRLS---K-RVNIIPVIAKADTL  156 (276)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCC-CCHHHHHHHHHHh---c-cCCEEEEEECCCcC
Confidence                                 111112233  467888888876421 1111 22333332   2 68999999999986


Q ss_pred             CCC--CCChHHHHHHHHHcCCeEEEeccCC
Q 028884          153 EKR--EVPAQDGIEYAEKNGMFFIETSAKT  180 (202)
Q Consensus       153 ~~~--~~~~~~~~~~~~~~~~~~~~~s~~~  180 (202)
                      ...  ........+.+...+++++.....+
T Consensus       157 ~~~e~~~~k~~i~~~l~~~~i~~~~~~~~~  186 (276)
T cd01850         157 TPEELKEFKQRIMEDIEEHNIKIYKFPEDE  186 (276)
T ss_pred             CHHHHHHHHHHHHHHHHHcCCceECCCCCc
Confidence            532  2334556667777888888776543

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.68  E-value=3.4e-15  Score=112.25  Aligned_cols=155  Identities=17%  Similarity=0.131  Sum_probs=111.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh-------hhhcccccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER-------YAALAPLYY  104 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~  104 (202)
                      -..+++++|.|++|||||++.|++.+......+..+....+-.+.+.+   ..++++|+||.-.       .........
T Consensus        62 Gda~v~lVGfPsvGKStLL~~LTnt~seva~y~FTTl~~VPG~l~Y~g---a~IQild~Pgii~gas~g~grG~~vlsv~  138 (365)
T COG1163          62 GDATVALVGFPSVGKSTLLNKLTNTKSEVADYPFTTLEPVPGMLEYKG---AQIQLLDLPGIIEGASSGRGRGRQVLSVA  138 (365)
T ss_pred             CCeEEEEEcCCCccHHHHHHHHhCCCccccccCceecccccceEeecC---ceEEEEcCcccccCcccCCCCcceeeeee
Confidence            358999999999999999999999776555554444455555566555   6899999998432       124466778


Q ss_pred             cCccEEEEEEeCCChhH-HHHHHHHHHHHHH-------------------------------------------------
Q 028884          105 RGAAVAVVVYDITSPDS-FNKAQYWVKELQK-------------------------------------------------  134 (202)
Q Consensus       105 ~~~d~~i~v~d~~~~~s-~~~~~~~~~~i~~-------------------------------------------------  134 (202)
                      ++||++++|+|+..+.+ .+.+.+.++..--                                                 
T Consensus       139 R~ADlIiiVld~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA~V  218 (365)
T COG1163         139 RNADLIIIVLDVFEDPHHRDIIERELEDVGIRLNKRPPDVTIKKKESGGIRINGTGPLTHLDEDTVRAILREYRIHNADV  218 (365)
T ss_pred             ccCCEEEEEEecCCChhHHHHHHHHHHhcCeEecCCCCceEEEEeccCCEEEecccccccCCHHHHHHHHHHhCcccceE
Confidence            99999999999997654 4555444442100                                                 


Q ss_pred             ----------------cCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          135 ----------------HGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       135 ----------------~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                                      ....-+|.++|.||.|+..     .++...+.+..  .++.+||..+.|++++.+.|++.+.
T Consensus       219 ~Ir~dvTlDd~id~l~~nrvY~p~l~v~NKiD~~~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L~  289 (365)
T COG1163         219 LIREDVTLDDLIDALEGNRVYKPALYVVNKIDLPG-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVLG  289 (365)
T ss_pred             EEecCCcHHHHHHHHhhcceeeeeEEEEecccccC-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhhC
Confidence                            0011589999999999765     23333443333  6899999999999999999998864

>PRK13351 elongation factor G; Reviewed

Probab=99.68  E-value=6.5e-16  Score=131.43  Aligned_cols=116  Identities=16%  Similarity=0.134  Sum_probs=81.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCC--------C-----CC-----ccccceeEEEEEEEecCCcEEEEEEEeCCC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFD--------P-----TS-----KVTVGASFLSQTIALQDSTTVKFEIWDTAG   92 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~--------~-----~~-----~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   92 (202)
                      +...+|+|+|+.++|||||+++|+...-.        .     .+     ....+.......+.+.   ...+.+|||||
T Consensus         6 ~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~---~~~i~liDtPG   82 (687)
T PRK13351          6 MQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWD---NHRINLIDTPG   82 (687)
T ss_pred             ccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEEC---CEEEEEEECCC
Confidence            45689999999999999999999853110        0     00     0111222222223322   27899999999


Q ss_pred             hhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           93 QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        93 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      +.++...+..+++.+|++++|+|++++........| ..+..   .++|+++++||+|+..
T Consensus        83 ~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~-~~~~~---~~~p~iiviNK~D~~~  139 (687)
T PRK13351         83 HIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVW-RQADR---YGIPRLIFINKMDRVG  139 (687)
T ss_pred             cHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHh---cCCCEEEEEECCCCCC
Confidence            999988888999999999999999987655544433 33332   3689999999999864

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.68  E-value=2.6e-15  Score=109.17  Aligned_cols=160  Identities=15%  Similarity=0.148  Sum_probs=98.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCc--cccceeEEEEEEEecCCcEEEEEEEeCCChhhhh-----------hcc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSK--VTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA-----------ALA  100 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-----------~~~  100 (202)
                      ++|+++|.+|+|||||+|.+++........  ...+.........+. +  ..+.++||||.....           ...
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~-~--~~i~viDTPG~~d~~~~~~~~~~~i~~~~   77 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWD-G--RRVNVIDTPGLFDTSVSPEQLSKEIVRCL   77 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEEC-C--eEEEEEECcCCCCccCChHHHHHHHHHHH
Confidence            589999999999999999999876433221  122222222222222 2  579999999943221           112


Q ss_pred             cccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCC--CCCeEEEEEeCCCCCCCCCC------ChHHHHHHHHHcCCe
Q 028884          101 PLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGS--PDIVMALVGNKADLHEKREV------PAQDGIEYAEKNGMF  172 (202)
Q Consensus       101 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~D~~~~~~~------~~~~~~~~~~~~~~~  172 (202)
                      ....++.|++|+|+++.+. +. .....++.++....  .-.++++++|+.|.......      .....+.+.+.++-.
T Consensus        78 ~~~~~g~~~illVi~~~~~-t~-~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~c~~r  155 (196)
T cd01852          78 SLSAPGPHAFLLVVPLGRF-TE-EEEQAVETLQELFGEKVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEKCGGR  155 (196)
T ss_pred             HhcCCCCEEEEEEEECCCc-CH-HHHHHHHHHHHHhChHhHhcEEEEEECccccCCCcHHHHHHhccHHHHHHHHHhCCe
Confidence            2234678999999998872 21 22233333433211  12468899999997654311      124455566666767


Q ss_pred             EEEecc-----CCCCCHHHHHHHHHHHcCCC
Q 028884          173 FIETSA-----KTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       173 ~~~~s~-----~~~~~i~~~~~~l~~~i~~~  198 (202)
                      ++..+.     ..+.++.++++.|.+.+.++
T Consensus       156 ~~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~~  186 (196)
T cd01852         156 YVAFNNKAKGEEQEQQVKELLAKVESMVKEN  186 (196)
T ss_pred             EEEEeCCCCcchhHHHHHHHHHHHHHHHHhc
Confidence            666553     45678999999998888763

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).

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.68  E-value=1e-15  Score=129.00  Aligned_cols=153  Identities=21%  Similarity=0.174  Sum_probs=95.1

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC---------------------------------ccccceeEEEEE
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS---------------------------------KVTVGASFLSQT   74 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~---------------------------------~~~~~~~~~~~~   74 (202)
                      .+....++|+++|++++|||||+++|+...-....                                 ....+.+.....
T Consensus        19 ~~~~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~   98 (632)
T PRK05506         19 HERKSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRY   98 (632)
T ss_pred             ccCCCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeE
Confidence            34556799999999999999999999874321110                                 001111222222


Q ss_pred             EEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884           75 IALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus        75 ~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                      +...   ...+.++||||++.|.......+..+|++++|+|+..+... +..+.+..+....  ..+++|++||+|+.+.
T Consensus        99 ~~~~---~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~-~t~e~~~~~~~~~--~~~iivvvNK~D~~~~  172 (632)
T PRK05506         99 FATP---KRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLT-QTRRHSFIASLLG--IRHVVLAVNKMDLVDY  172 (632)
T ss_pred             EccC---CceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccc-cCHHHHHHHHHhC--CCeEEEEEEecccccc
Confidence            2221   25788999999988765555567889999999999876322 1222223333332  2568899999998642


Q ss_pred             CCCChH----HHHHHHHHcC---CeEEEeccCCCCCHHH
Q 028884          155 REVPAQ----DGIEYAEKNG---MFFIETSAKTADNINQ  186 (202)
Q Consensus       155 ~~~~~~----~~~~~~~~~~---~~~~~~s~~~~~~i~~  186 (202)
                      .....+    +...+....+   .+++++||++|.|+.+
T Consensus       173 ~~~~~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        173 DQEVFDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             hhHHHHHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            221111    2222333433   4589999999999873

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=99.67  E-value=2.7e-15  Score=112.81  Aligned_cols=171  Identities=19%  Similarity=0.296  Sum_probs=128.0

Q ss_pred             CCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecC-CcEEEEEEEeCCChhhhhhcccccc
Q 028884           26 SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQD-STTVKFEIWDTAGQERYAALAPLYY  104 (202)
Q Consensus        26 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~  104 (202)
                      .+.+-+..-+|+|+|..++||||||.+|.+.+   ...+..+..+.+..+.... ....++.+|-..|+..+..+....+
T Consensus        45 ~~sklpsgk~VlvlGdn~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al  121 (473)
T KOG3905|consen   45 TRSKLPSGKNVLVLGDNGSGKTSLISKLQGSE---TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFAL  121 (473)
T ss_pred             ccccCCCCCeEEEEccCCCchhHHHHHhhccc---ccCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcc
Confidence            34445567899999999999999999999854   3344455566555553322 2236788999999888888777766


Q ss_pred             cCc----cEEEEEEeCCChhHH-HHHHHHHHHHHHcC-------------------------------------------
Q 028884          105 RGA----AVAVVVYDITSPDSF-NKAQYWVKELQKHG-------------------------------------------  136 (202)
Q Consensus       105 ~~~----d~~i~v~d~~~~~s~-~~~~~~~~~i~~~~-------------------------------------------  136 (202)
                      ...    ..||++.|+++|+.+ +.+++|...++.+-                                           
T Consensus       122 ~ats~aetlviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~  201 (473)
T KOG3905|consen  122 PATSLAETLVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVG  201 (473)
T ss_pred             cccCccceEEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCccccccccc
Confidence            643    478999999999664 67788887554210                                           


Q ss_pred             ------------------CCCCeEEEEEeCCCCCC----C-------CCCChHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 028884          137 ------------------SPDIVMALVGNKADLHE----K-------REVPAQDGIEYAEKNGMFFIETSAKTADNINQL  187 (202)
Q Consensus       137 ------------------~~~~p~ivv~nK~D~~~----~-------~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~  187 (202)
                                        +-++|++||++|+|...    +       .++....++.||..++..++.+|.++..|++-+
T Consensus       202 ~~~de~~llPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidll  281 (473)
T KOG3905|consen  202 SSADEHVLLPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLL  281 (473)
T ss_pred             CccccccccccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHH
Confidence                              22699999999999832    1       123345577899999999999999999999999


Q ss_pred             HHHHHHHcCCCC
Q 028884          188 FEEIAKRLPRPS  199 (202)
Q Consensus       188 ~~~l~~~i~~~~  199 (202)
                      +.+|+++++--.
T Consensus       282 yKYivhr~yG~~  293 (473)
T KOG3905|consen  282 YKYIVHRSYGFP  293 (473)
T ss_pred             HHHHHHHhcCcc
Confidence            999999987654

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=99.67  E-value=3.6e-15  Score=99.37  Aligned_cols=105  Identities=19%  Similarity=0.268  Sum_probs=67.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCC-ccccceeEEEEEEEecCCcEEEEEEEeCCChhh----------hhhccccc
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTS-KVTVGASFLSQTIALQDSTTVKFEIWDTAGQER----------YAALAPLY  103 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~~~~~~  103 (202)
                      +|+|+|.+|+|||||+|+|++....... .+..+.......+.+.+   ..+.++||||...          +..... .
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~---~~~~~vDtpG~~~~~~~~~~~~~~~~~~~-~   76 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNN---KKFILVDTPGINDGESQDNDGKEIRKFLE-Q   76 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETT---EEEEEEESSSCSSSSHHHHHHHHHHHHHH-H
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeeece---eeEEEEeCCCCcccchhhHHHHHHHHHHH-H
Confidence            6899999999999999999985432222 22233333333334433   4568999999531          112333 3


Q ss_pred             ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeC
Q 028884          104 YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNK  148 (202)
Q Consensus       104 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK  148 (202)
                      +..+|++++|+|.+++.. +.....+..++    .+.|+++|+||
T Consensus        77 ~~~~d~ii~vv~~~~~~~-~~~~~~~~~l~----~~~~~i~v~NK  116 (116)
T PF01926_consen   77 ISKSDLIIYVVDASNPIT-EDDKNILRELK----NKKPIILVLNK  116 (116)
T ss_dssp             HCTESEEEEEEETTSHSH-HHHHHHHHHHH----TTSEEEEEEES
T ss_pred             HHHCCEEEEEEECCCCCC-HHHHHHHHHHh----cCCCEEEEEcC
Confidence            478999999999888421 22334444442    57899999998

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 ....

>TIGR00503 prfC peptide chain release factor 3

Probab=99.66  E-value=7.6e-15  Score=120.58  Aligned_cols=117  Identities=15%  Similarity=0.199  Sum_probs=77.5

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh--CCCCCC------------------CccccceeEEEEEEEecCCcEEEEEEEeC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR--GQFDPT------------------SKVTVGASFLSQTIALQDSTTVKFEIWDT   90 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~--~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~   90 (202)
                      .+..+|+|+|++++|||||+++|+.  +.....                  .....+.........+..+. ..+.+|||
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~-~~inliDT   87 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRD-CLVNLLDT   87 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCC-eEEEEEEC
Confidence            4567999999999999999999864  111000                  00001111222222222222 78999999


Q ss_pred             CChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 028884           91 AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH  152 (202)
Q Consensus        91 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~  152 (202)
                      ||+..|.......++.+|++|+|+|+++... .....+++....   .++|+++++||+|+.
T Consensus        88 PG~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~---~~~PiivviNKiD~~  145 (527)
T TIGR00503        88 PGHEDFSEDTYRTLTAVDNCLMVIDAAKGVE-TRTRKLMEVTRL---RDTPIFTFMNKLDRD  145 (527)
T ss_pred             CChhhHHHHHHHHHHhCCEEEEEEECCCCCC-HHHHHHHHHHHh---cCCCEEEEEECcccc
Confidence            9998887766777889999999999987521 223444443332   468999999999974

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.

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

Probab=99.65  E-value=7.5e-16  Score=104.78  Aligned_cols=156  Identities=14%  Similarity=0.172  Sum_probs=116.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      ..-|++++|-.|+|||||++-|.+... ..+.|+...  +.....+.+   ..++.+|.+|+...+..|..|+..+|+++
T Consensus        19 K~gKllFlGLDNAGKTTLLHMLKdDrl-~qhvPTlHP--TSE~l~Ig~---m~ftt~DLGGH~qArr~wkdyf~~v~~iv   92 (193)
T KOG0077|consen   19 KFGKLLFLGLDNAGKTTLLHMLKDDRL-GQHVPTLHP--TSEELSIGG---MTFTTFDLGGHLQARRVWKDYFPQVDAIV   92 (193)
T ss_pred             cCceEEEEeecCCchhhHHHHHccccc-cccCCCcCC--ChHHheecC---ceEEEEccccHHHHHHHHHHHHhhhceeE
Confidence            456899999999999999999988664 334443322  233344444   78999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHH---HHcC--------------CeE
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYA---EKNG--------------MFF  173 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~---~~~~--------------~~~  173 (202)
                      +.+|+-|.+.|.+.+..++.+... ....+|+++.+||+|.....  ++++.+...   +..+              ..+
T Consensus        93 ~lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~--se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~ev  170 (193)
T KOG0077|consen   93 YLVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYAA--SEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEV  170 (193)
T ss_pred             eeeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcc--cHHHHHHHHHHHHHhcccccccccCCCCCeEEE
Confidence            999999999998888877776544 35689999999999976644  333322111   1111              136


Q ss_pred             EEeccCCCCCHHHHHHHHHHHc
Q 028884          174 IETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       174 ~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      +.||...+.+..+.|.|+...+
T Consensus       171 fmcsi~~~~gy~e~fkwl~qyi  192 (193)
T KOG0077|consen  171 FMCSIVRKMGYGEGFKWLSQYI  192 (193)
T ss_pred             EEEEEEccCccceeeeehhhhc
Confidence            7788888888888888887654

>PRK12739 elongation factor G; Reviewed

Probab=99.65  E-value=1.8e-14  Score=122.55  Aligned_cols=117  Identities=15%  Similarity=0.091  Sum_probs=82.4

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCC--CCC----------------CCccccceeEEEEEEEecCCcEEEEEEEeCC
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQ--FDP----------------TSKVTVGASFLSQTIALQDSTTVKFEIWDTA   91 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~--~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   91 (202)
                      ..+..+|+|+|++++|||||+++|+...  ...                .....++.+.....+.+.+   ..+.++|||
T Consensus         5 ~~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~---~~i~liDTP   81 (691)
T PRK12739          5 LEKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKG---HRINIIDTP   81 (691)
T ss_pred             ccCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECC---EEEEEEcCC
Confidence            3457899999999999999999997521  000                0122334444444444432   689999999


Q ss_pred             ChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           92 GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        92 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      |+..+...+...++.+|++|+|+|+.++..... ...+..+..   .++|+++++||+|+..
T Consensus        82 G~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt-~~i~~~~~~---~~~p~iv~iNK~D~~~  139 (691)
T PRK12739         82 GHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQS-ETVWRQADK---YGVPRIVFVNKMDRIG  139 (691)
T ss_pred             CHHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHH-HHHHHHHHH---cCCCEEEEEECCCCCC
Confidence            998888788888999999999999988743222 233333333   3688999999999864

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.64  E-value=6e-15  Score=113.97  Aligned_cols=160  Identities=18%  Similarity=0.160  Sum_probs=96.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEE---------------------ecCCcEEEEEEEeCCCh-
Q 028884           36 LVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIA---------------------LQDSTTVKFEIWDTAGQ-   93 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~---------------------~~~~~~~~~~i~D~~G~-   93 (202)
                      |+++|.|++|||||+++|++........+..+.+.......                     ..+...+.+++||+||. 
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv   80 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLV   80 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCC
Confidence            57999999999999999998764322221111111111111                     11123367999999997 


Q ss_pred             ---hhhhhcccc---cccCccEEEEEEeCCC---------------h-hHHHHH----HHH-HHHH-------HH-----
Q 028884           94 ---ERYAALAPL---YYRGAAVAVVVYDITS---------------P-DSFNKA----QYW-VKEL-------QK-----  134 (202)
Q Consensus        94 ---~~~~~~~~~---~~~~~d~~i~v~d~~~---------------~-~s~~~~----~~~-~~~i-------~~-----  134 (202)
                         .+...+...   .++.+|++++|+|.+.               | ..++.+    ..| +..+       .+     
T Consensus        81 ~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~~~~d~~~~~~~~~~~dp~~d~~~i~~El~~~d~~~~~~~~~~~~~~~~~~  160 (318)
T cd01899          81 PGAHEGKGLGNKFLDDLRDADALIHVVDASGGTDAEGNGVETGGHDPLEDIEFLENEIDMWIYGILEKNWEKIVRKADAE  160 (318)
T ss_pred             CCccchhhHHHHHHHHHHHCCEEEEEEeCCCCcccccccccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence               334443333   5889999999999973               2 112111    111 0000       00     


Q ss_pred             ---------------------------c----------------------CCCCCeEEEEEeCCCCCCCCCCChHHHHHH
Q 028884          135 ---------------------------H----------------------GSPDIVMALVGNKADLHEKREVPAQDGIEY  165 (202)
Q Consensus       135 ---------------------------~----------------------~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~  165 (202)
                                                 .                      ....+|+++|+||.|+......  .. ...
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~~~~~~~~~llt~KPvI~VlNK~Dl~~~~~~--~~-~l~  237 (318)
T cd01899         161 KTDIVEALSEQLSGFGVNEKDVIEALEELELPEDLSKWTDEDLLRLARALRKRSKPMVIAANKADIPDAENN--IS-KLR  237 (318)
T ss_pred             CccHHHHHHHHHhhccccHHHHHHHHHhCCCCCcccCCCHHHHHHHHHHHHhcCCcEEEEEEHHHccChHHH--HH-HHH
Confidence                                       0                      0124799999999997532211  11 111


Q ss_pred             HHHcCCeEEEeccCCCCCHHHHHH-HHHHHcCCC
Q 028884          166 AEKNGMFFIETSAKTADNINQLFE-EIAKRLPRP  198 (202)
Q Consensus       166 ~~~~~~~~~~~s~~~~~~i~~~~~-~l~~~i~~~  198 (202)
                      .......++.+||+.+.++.++.+ .+.+++++-
T Consensus       238 ~~~~~~~iI~iSA~~e~~L~~L~~~~i~~~lPe~  271 (318)
T cd01899         238 LKYPDEIVVPTSAEAELALRRAAKQGLIKYDPGD  271 (318)
T ss_pred             hhCCCCeEEEEeCcccccHHHHHHhhHHHhCCCC
Confidence            222355699999999999999998 699998764

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.

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.63  E-value=4.9e-15  Score=114.79  Aligned_cols=152  Identities=20%  Similarity=0.217  Sum_probs=99.6

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCC--C-----------------------------CCCCccccceeEEEEEEEec
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQ--F-----------------------------DPTSKVTVGASFLSQTIALQ   78 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~   78 (202)
                      .++.++++|+|+..+|||||+-+|+...  +                             ........+.+.....+..+
T Consensus         4 ~Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~   83 (428)
T COG5256           4 EKPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETD   83 (428)
T ss_pred             CCCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecC
Confidence            3568999999999999999999987631  0                             11122223344434344332


Q ss_pred             CCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChh---HH---HHHHHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 028884           79 DSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD---SF---NKAQYWVKELQKHGSPDIVMALVGNKADLH  152 (202)
Q Consensus        79 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~---~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~  152 (202)
                         .+.+.++|+||+..|-.....-...||++|||+|+++++   .|   .+.++.+-..+...  -..+||++||+|..
T Consensus        84 ---k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlG--i~~lIVavNKMD~v  158 (428)
T COG5256          84 ---KYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLG--IKQLIVAVNKMDLV  158 (428)
T ss_pred             ---CceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcC--CceEEEEEEccccc
Confidence               268999999999988877777788899999999999873   11   12233333333333  23388889999987


Q ss_pred             CCCCCChHHH----HHHHHHc-----CCeEEEeccCCCCCHHH
Q 028884          153 EKREVPAQDG----IEYAEKN-----GMFFIETSAKTADNINQ  186 (202)
Q Consensus       153 ~~~~~~~~~~----~~~~~~~-----~~~~~~~s~~~~~~i~~  186 (202)
                      +-.+...++.    ..+.+..     ..+++++|+..|.|+.+
T Consensus       159 ~wde~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~  201 (428)
T COG5256         159 SWDEERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTK  201 (428)
T ss_pred             ccCHHHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCcccc
Confidence            6332222222    2233232     35699999999988754

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.62  E-value=3e-14  Score=121.21  Aligned_cols=116  Identities=15%  Similarity=0.056  Sum_probs=81.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCC-----CC-------------ccccceeEEEEEEEecCCcEEEEEEEeCCC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDP-----TS-------------KVTVGASFLSQTIALQDSTTVKFEIWDTAG   92 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-----~~-------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   92 (202)
                      ++..+|+|+|++++|||||+++|+...-..     ..             ...++.......+.+.+   ..+.+|||||
T Consensus         8 ~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~---~~i~liDTPG   84 (689)
T TIGR00484         8 NRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKG---HRINIIDTPG   84 (689)
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECC---eEEEEEECCC
Confidence            456799999999999999999997521100     00             11233333333444432   6899999999


Q ss_pred             hhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           93 QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        93 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      +..+...+...++.+|++++|+|+.++...+.. .++..+..   .++|+++++||+|+..
T Consensus        85 ~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~-~~~~~~~~---~~~p~ivviNK~D~~~  141 (689)
T TIGR00484        85 HVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSE-TVWRQANR---YEVPRIAFVNKMDKTG  141 (689)
T ss_pred             CcchhHHHHHHHHHhCEEEEEEeCCCCCChhHH-HHHHHHHH---cCCCEEEEEECCCCCC
Confidence            988877788889999999999999986444332 23333333   3688999999999863

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.

>PRK09866 hypothetical protein; Provisional

Probab=99.62  E-value=4.2e-14  Score=115.85  Aligned_cols=109  Identities=16%  Similarity=0.138  Sum_probs=72.8

Q ss_pred             EEEEEeCCChhh-----hhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC
Q 028884           84 KFEIWDTAGQER-----YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP  158 (202)
Q Consensus        84 ~~~i~D~~G~~~-----~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~  158 (202)
                      .+.|+||||...     ........+..+|+++||+|.....+... ...++.+... +...|+++|+||+|+.+.....
T Consensus       231 QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk~-~K~~PVILVVNKIDl~dreedd  308 (741)
T PRK09866        231 QLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD-EEVREAILAV-GQSVPLYVLVNKFDQQDRNSDD  308 (741)
T ss_pred             CEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH-HHHHHHHHhc-CCCCCEEEEEEcccCCCcccch
Confidence            578999999643     22233346889999999999987533322 2233444443 2235999999999986433323


Q ss_pred             hHHHHHHHH----Hc---CCeEEEeccCCCCCHHHHHHHHHHH
Q 028884          159 AQDGIEYAE----KN---GMFFIETSAKTADNINQLFEEIAKR  194 (202)
Q Consensus       159 ~~~~~~~~~----~~---~~~~~~~s~~~~~~i~~~~~~l~~~  194 (202)
                      .+....+..    ..   ...+|++||+.|.|++.+++.|...
T Consensus       309 kE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~~  351 (741)
T PRK09866        309 ADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELANN  351 (741)
T ss_pred             HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHhC
Confidence            344444432    11   2359999999999999999998874

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.61  E-value=1.6e-14  Score=109.44  Aligned_cols=162  Identities=19%  Similarity=0.118  Sum_probs=104.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh-------hhhcccccccCc
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER-------YAALAPLYYRGA  107 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~  107 (202)
                      -|.++|.|++||||||+.+..-+.....++..+....--.+.+...  -.|.+-|.||.-+       ........+..+
T Consensus       161 DVGLVG~PNaGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~~~~--~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt  238 (369)
T COG0536         161 DVGLVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRVDGG--ESFVVADIPGLIEGASEGVGLGLRFLRHIERT  238 (369)
T ss_pred             ccccccCCCCcHHHHHHHHhhcCCcccCCccccccCcccEEEecCC--CcEEEecCcccccccccCCCccHHHHHHHHhh
Confidence            3558999999999999999987654444444444333333444222  3699999999432       111122335568


Q ss_pred             cEEEEEEeCCChh---HHHHHHHHHHHHHHc--CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEE-EeccCCC
Q 028884          108 AVAVVVYDITSPD---SFNKAQYWVKELQKH--GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFI-ETSAKTA  181 (202)
Q Consensus       108 d~~i~v~d~~~~~---s~~~~~~~~~~i~~~--~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~-~~s~~~~  181 (202)
                      -+++.|+|++..+   -.+.......++..+  .-.++|.+||+||+|+....+........+.+..+.... .+|+.++
T Consensus       239 ~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~~~~~~ISa~t~  318 (369)
T COG0536         239 RVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYLISALTR  318 (369)
T ss_pred             heeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCCCcceeeehhcc
Confidence            8999999998543   233444333444333  235788999999999765544434444445544454422 2999999


Q ss_pred             CCHHHHHHHHHHHcCCC
Q 028884          182 DNINQLFEEIAKRLPRP  198 (202)
Q Consensus       182 ~~i~~~~~~l~~~i~~~  198 (202)
                      .|++++...+.+.+.+.
T Consensus       319 ~g~~~L~~~~~~~l~~~  335 (369)
T COG0536         319 EGLDELLRALAELLEET  335 (369)
T ss_pred             cCHHHHHHHHHHHHHHh
Confidence            99999999988877654

>PRK00007 elongation factor G; Reviewed

Probab=99.61  E-value=9e-14  Score=118.26  Aligned_cols=117  Identities=16%  Similarity=0.116  Sum_probs=80.5

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHh--CCCCC---C-------------CccccceeEEEEEEEecCCcEEEEEEEeCC
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVR--GQFDP---T-------------SKVTVGASFLSQTIALQDSTTVKFEIWDTA   91 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~--~~~~~---~-------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   91 (202)
                      .++..+|+|+|++++|||||+++|+.  +....   .             .....+.+.....+.+.+   ..+.++|||
T Consensus         7 ~~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~---~~~~liDTP   83 (693)
T PRK00007          7 LERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKD---HRINIIDTP   83 (693)
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECC---eEEEEEeCC
Confidence            34578999999999999999999974  21100   0             122233333333444432   689999999


Q ss_pred             ChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           92 GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        92 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      |+..+.......+..+|++++|+|+..+...+. ...+..+...   ++|+++++||+|+..
T Consensus        84 G~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt-~~~~~~~~~~---~~p~iv~vNK~D~~~  141 (693)
T PRK00007         84 GHVDFTIEVERSLRVLDGAVAVFDAVGGVEPQS-ETVWRQADKY---KVPRIAFVNKMDRTG  141 (693)
T ss_pred             CcHHHHHHHHHHHHHcCEEEEEEECCCCcchhh-HHHHHHHHHc---CCCEEEEEECCCCCC
Confidence            998887667777888999999999987643333 2233334433   678999999999863

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.60  E-value=3.8e-14  Score=114.26  Aligned_cols=168  Identities=21%  Similarity=0.323  Sum_probs=125.1

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCC-cEEEEEEEeCCChhhhhhcccccccCc-
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDS-TTVKFEIWDTAGQERYAALAPLYYRGA-  107 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~-  107 (202)
                      ....-+|+|+|..++||||||.+|.+..   ...++.+.+|.+..+...+. ...++.+|...|...+..+....+... 
T Consensus        22 ~~~~k~vlvlG~~~~GKttli~~L~~~e---~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~   98 (472)
T PF05783_consen   22 LPSEKSVLVLGDKGSGKTTLIARLQGIE---DPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPEN   98 (472)
T ss_pred             CCCCceEEEEeCCCCchHHHHHHhhccC---CCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCccc
Confidence            3456899999999999999999987643   34456677777766654432 335789999998777777777766632 


Q ss_pred             ---cEEEEEEeCCChhHH-HHHHHHHHHHHHcC-----------------------------------------------
Q 028884          108 ---AVAVVVYDITSPDSF-NKAQYWVKELQKHG-----------------------------------------------  136 (202)
Q Consensus       108 ---d~~i~v~d~~~~~s~-~~~~~~~~~i~~~~-----------------------------------------------  136 (202)
                         -++++|+|.+.|+.+ +.+.+|+..++.+-                                               
T Consensus        99 l~~t~vvIvlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~  178 (472)
T PF05783_consen   99 LPNTLVVIVLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSD  178 (472)
T ss_pred             ccceEEEEEecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCcccccccccccc
Confidence               378889999999775 56777776543210                                               


Q ss_pred             ---------------CCCCeEEEEEeCCCCCC----C-------CCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          137 ---------------SPDIVMALVGNKADLHE----K-------REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       137 ---------------~~~~p~ivv~nK~D~~~----~-------~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                                     +.++|++||++|+|...    +       .++..+.++.+|..+++.++.+|++...+++.++.+
T Consensus       179 ~~~~~lpl~~g~l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~y  258 (472)
T PF05783_consen  179 DESVLLPLGEGVLTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKY  258 (472)
T ss_pred             cccccCCCCCcccccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHH
Confidence                           11589999999999642    1       123334477788899999999999999999999999


Q ss_pred             HHHHcCCCCC
Q 028884          191 IAKRLPRPSP  200 (202)
Q Consensus       191 l~~~i~~~~~  200 (202)
                      |.+.++....
T Consensus       259 i~h~l~~~~f  268 (472)
T PF05783_consen  259 ILHRLYGFPF  268 (472)
T ss_pred             HHHHhccCCC
Confidence            9999887643

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 [].

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=99.60  E-value=1.6e-15  Score=107.24  Aligned_cols=118  Identities=21%  Similarity=0.324  Sum_probs=71.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccc---cccCccE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPL---YYRGAAV  109 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~---~~~~~d~  109 (202)
                      .-.|+++|+.|+|||+|..+|..+...+....- ....   ...........+.++|+||+++.+.....   +...+-+
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~-e~n~---~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~   78 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVNGKTVPTVTSM-ENNI---AYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKG   78 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHHSS---B---S-SEEE---ECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEE
T ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCcCCeeccc-cCCc---eEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCE
Confidence            457999999999999999999998543333221 1111   11111222247899999999988754433   4778999


Q ss_pred             EEEEEeCCC-hhHHHHHHHHHHH-HHHc--CCCCCeEEEEEeCCCCCCC
Q 028884          110 AVVVYDITS-PDSFNKAQYWVKE-LQKH--GSPDIVMALVGNKADLHEK  154 (202)
Q Consensus       110 ~i~v~d~~~-~~s~~~~~~~~~~-i~~~--~~~~~p~ivv~nK~D~~~~  154 (202)
                      +|||+|.+. ...+.+..+++-. +...  .....|++|++||.|+...
T Consensus        79 IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A  127 (181)
T PF09439_consen   79 IIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTA  127 (181)
T ss_dssp             EEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT-
T ss_pred             EEEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcccccc
Confidence            999999984 3445555444333 3222  3467999999999998654

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.

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.60  E-value=2.5e-14  Score=112.18  Aligned_cols=164  Identities=17%  Similarity=0.225  Sum_probs=117.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCC--C------------CCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQF--D------------PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA   97 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~--~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   97 (202)
                      ..-+|+++.+...|||||+..|+.+.-  .            ......-+..+-.++..+..+. +++.++||||+..|.
T Consensus         4 ~iRNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~-~~INIvDTPGHADFG   82 (603)
T COG1217           4 DIRNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNG-TRINIVDTPGHADFG   82 (603)
T ss_pred             ccceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCC-eEEEEecCCCcCCcc
Confidence            356899999999999999999987521  1            1112233444555554444333 799999999999999


Q ss_pred             hcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC--CChHHHHHHHH------Hc
Q 028884           98 ALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE--VPAQDGIEYAE------KN  169 (202)
Q Consensus        98 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~------~~  169 (202)
                      ...+..+..+|++++++|+.++. +.+.+..+.....   .+.+.|||+||+|.+..+.  +..+....+..      ++
T Consensus        83 GEVERvl~MVDgvlLlVDA~EGp-MPQTrFVlkKAl~---~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQL  158 (603)
T COG1217          83 GEVERVLSMVDGVLLLVDASEGP-MPQTRFVLKKALA---LGLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQL  158 (603)
T ss_pred             chhhhhhhhcceEEEEEEcccCC-CCchhhhHHHHHH---cCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhC
Confidence            99999999999999999999763 2333444443333   3566899999999876543  22222222222      35


Q ss_pred             CCeEEEeccCCC----------CCHHHHHHHHHHHcCCCCC
Q 028884          170 GMFFIETSAKTA----------DNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       170 ~~~~~~~s~~~~----------~~i~~~~~~l~~~i~~~~~  200 (202)
                      +++++..|++.|          .++.-+|+.|++++..|..
T Consensus       159 dFPivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~P~~  199 (603)
T COG1217         159 DFPIVYASARNGTASLDPEDEADDMAPLFETILDHVPAPKG  199 (603)
T ss_pred             CCcEEEeeccCceeccCccccccchhHHHHHHHHhCCCCCC
Confidence            778999998888          4799999999999998863

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.59  E-value=6.8e-15  Score=110.44  Aligned_cols=168  Identities=19%  Similarity=0.174  Sum_probs=114.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc---cccceeEEEEE--------------EEe----c-C----CcEEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK---VTVGASFLSQT--------------IAL----Q-D----STTVK   84 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~---~~~~~~~~~~~--------------~~~----~-~----~~~~~   84 (202)
                      ++.++|.++|+...|||||...|.+-..+....   ..++....+..              +..    . .    .-...
T Consensus         8 Qp~vNIG~vGHVdHGKtTlv~AlsGvwT~~hseElkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~   87 (415)
T COG5257           8 QPEVNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRR   87 (415)
T ss_pred             CcceEeeeeeecccchhhheehhhceeeechhHHHhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCccEEEE
Confidence            789999999999999999999998743211110   01111000000              000    0 0    01257


Q ss_pred             EEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC--CChHHH
Q 028884           85 FEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE--VPAQDG  162 (202)
Q Consensus        85 ~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~  162 (202)
                      +.|+|.||++-.-+....-..-.|++++|++++.+-...+.++.+..+.-..-  +.++++.||.|+...+.  ...+++
T Consensus        88 VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIigi--k~iiIvQNKIDlV~~E~AlE~y~qI  165 (415)
T COG5257          88 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEIIGI--KNIIIVQNKIDLVSRERALENYEQI  165 (415)
T ss_pred             EEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhhcc--ceEEEEecccceecHHHHHHHHHHH
Confidence            89999999987665555445557999999999987655666777766666542  34899999999876432  233444


Q ss_pred             HHHHHH---cCCeEEEeccCCCCCHHHHHHHHHHHcCCCCC
Q 028884          163 IEYAEK---NGMFFIETSAKTADNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       163 ~~~~~~---~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~~~  200 (202)
                      .+|.+-   .+.+++++||..+.|++.++++|.+.|..+..
T Consensus       166 k~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~IptP~r  206 (415)
T COG5257         166 KEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPTPER  206 (415)
T ss_pred             HHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCCCcc
Confidence            444443   36789999999999999999999999988753

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.58  E-value=1.1e-14  Score=114.73  Aligned_cols=167  Identities=20%  Similarity=0.184  Sum_probs=105.1

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccce-eEEEEEEEecCCcEEEEEEEeCCChhhh--------h-
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGA-SFLSQTIALQDSTTVKFEIWDTAGQERY--------A-   97 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------~-   97 (202)
                      +..+..++|+++|+||+|||||+|.|...+.....+...++ +.....+...+   +.+.+.||.|..+-        . 
T Consensus       263 e~lq~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~G---~~v~L~DTAGiRe~~~~~iE~~gI  339 (531)
T KOG1191|consen  263 ERLQSGLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVNG---VPVRLSDTAGIREESNDGIEALGI  339 (531)
T ss_pred             HHhhcCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecCC---eEEEEEeccccccccCChhHHHhH
Confidence            33456799999999999999999999998876665543333 33333333322   68999999996541        0 


Q ss_pred             hcccccccCccEEEEEEeCCC--hhHHHHHHHHHHHHHHc------CCCCCeEEEEEeCCCCCCC-CCCChHHHHHHHHH
Q 028884           98 ALAPLYYRGAAVAVVVYDITS--PDSFNKAQYWVKELQKH------GSPDIVMALVGNKADLHEK-REVPAQDGIEYAEK  168 (202)
Q Consensus        98 ~~~~~~~~~~d~~i~v~d~~~--~~s~~~~~~~~~~i~~~------~~~~~p~ivv~nK~D~~~~-~~~~~~~~~~~~~~  168 (202)
                      ......+..+|++++|+|+..  -.+-..+...++.....      .....|++++.||.|+... .+............
T Consensus       340 ~rA~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~~~~~~~~~~  419 (531)
T KOG1191|consen  340 ERARKRIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTKIPVVYPSAE  419 (531)
T ss_pred             HHHHHHHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccCCceeccccc
Confidence            112334667999999999943  33323333444433221      1234789999999998665 22111111111111


Q ss_pred             ---cCCeEEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          169 ---NGMFFIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       169 ---~~~~~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                         ..-.+.++|+++++++..+.+.|.+.+..
T Consensus       420 ~~~~~~i~~~vs~~tkeg~~~L~~all~~~~~  451 (531)
T KOG1191|consen  420 GRSVFPIVVEVSCTTKEGCERLSTALLNIVER  451 (531)
T ss_pred             cCcccceEEEeeechhhhHHHHHHHHHHHHHH
Confidence               11235669999999999999998876643

>PRK12740 elongation factor G; Reviewed

Probab=99.55  E-value=6.5e-14  Score=119.10  Aligned_cols=108  Identities=19%  Similarity=0.173  Sum_probs=73.9

Q ss_pred             EcCCCCcHHHHHHHHHhCCCC--------C----------CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcc
Q 028884           39 LGDSGVGKSCIVLRFVRGQFD--------P----------TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALA  100 (202)
Q Consensus        39 ~G~~~~GKSsli~~l~~~~~~--------~----------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~  100 (202)
                      +|++++|||||+++|+...-.        .          .....++.......+.+.+   +.+.+|||||+..+...+
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~---~~i~liDtPG~~~~~~~~   77 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKG---HKINLIDTPGHVDFTGEV   77 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECC---EEEEEEECCCcHHHHHHH
Confidence            699999999999999653210        0          0012222333333333322   689999999998887777


Q ss_pred             cccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884          101 PLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus       101 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      ..++..+|++++|+|++..........| ..+..   .++|+++|+||+|+..
T Consensus        78 ~~~l~~aD~vllvvd~~~~~~~~~~~~~-~~~~~---~~~p~iiv~NK~D~~~  126 (668)
T PRK12740         78 ERALRVLDGAVVVVCAVGGVEPQTETVW-RQAEK---YGVPRIIFVNKMDRAG  126 (668)
T ss_pred             HHHHHHhCeEEEEEeCCCCcCHHHHHHH-HHHHH---cCCCEEEEEECCCCCC
Confidence            8888999999999999987544433322 33332   3689999999999763

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.54  E-value=2.9e-13  Score=107.63  Aligned_cols=84  Identities=18%  Similarity=0.150  Sum_probs=54.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEE---------------------ecCCcEEEEEEEeCCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIA---------------------LQDSTTVKFEIWDTAG   92 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~---------------------~~~~~~~~~~i~D~~G   92 (202)
                      ++|+++|.|++|||||+|+|++........+..+.+...-...                     ..+.....+++||+||
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG   81 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG   81 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence            6899999999999999999998765432222222122221111                     1112236789999999


Q ss_pred             hh----hhhhcccc---cccCccEEEEEEeCC
Q 028884           93 QE----RYAALAPL---YYRGAAVAVVVYDIT  117 (202)
Q Consensus        93 ~~----~~~~~~~~---~~~~~d~~i~v~d~~  117 (202)
                      ..    ....+-..   .++.+|++++|+|..
T Consensus        82 l~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         82 LVPGAHEGRGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             cCCCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence            52    22222223   388999999999997

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.53  E-value=2e-13  Score=96.96  Aligned_cols=156  Identities=21%  Similarity=0.264  Sum_probs=99.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhccccccc---CccE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR---GAAV  109 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~---~~d~  109 (202)
                      +-.|+++|+.+||||+|.-+|..+........ +.  .....+.+.+   ..+.++|.||+.+.+.....+++   .+-+
T Consensus        38 ~~~Vll~Gl~dSGKT~LF~qL~~gs~~~TvtS-ie--pn~a~~r~gs---~~~~LVD~PGH~rlR~kl~e~~~~~~~aka  111 (238)
T KOG0090|consen   38 QNAVLLVGLSDSGKTSLFTQLITGSHRGTVTS-IE--PNEATYRLGS---ENVTLVDLPGHSRLRRKLLEYLKHNYSAKA  111 (238)
T ss_pred             CCcEEEEecCCCCceeeeeehhcCCccCeeee-ec--cceeeEeecC---cceEEEeCCCcHHHHHHHHHHcccccccee
Confidence            45799999999999999999998754333221 11  1111122222   34899999999998877666666   6889


Q ss_pred             EEEEEeCCC-hhHHHHH-HHHHHHHHHc--CCCCCeEEEEEeCCCCCCCCCCC------hHHHH----------------
Q 028884          110 AVVVYDITS-PDSFNKA-QYWVKELQKH--GSPDIVMALVGNKADLHEKREVP------AQDGI----------------  163 (202)
Q Consensus       110 ~i~v~d~~~-~~s~~~~-~~~~~~i~~~--~~~~~p~ivv~nK~D~~~~~~~~------~~~~~----------------  163 (202)
                      ++||+|... ....... ..+|..+...  +....|+++++||.|+.......      +.++.                
T Consensus       112 iVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt~~~Ir~~LEkEi~~lr~sRsa~~~~~~ed  191 (238)
T KOG0090|consen  112 IVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKTAEKIRQQLEKEIHKLRESRSALRSISDED  191 (238)
T ss_pred             EEEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCcHHHHHHHHHHHHHHHHHHHhhhhcccccc
Confidence            999999863 2223333 3344444333  46678899999999985432100      00000                


Q ss_pred             --------------HHH--HHcCCeEEEeccCCCCCHHHHHHHHHHHc
Q 028884          164 --------------EYA--EKNGMFFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       164 --------------~~~--~~~~~~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                                    +|.  ....+.+.++|++++ +++++-+||.+.+
T Consensus       192 ~~~~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~~~l  238 (238)
T KOG0090|consen  192 IAKDFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIREAL  238 (238)
T ss_pred             ccccccccccccccchhhcccceeEEeecccCcC-ChHHHHHHHHHhC
Confidence                          000  012245788999998 8999999988764

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.53  E-value=2.2e-13  Score=103.65  Aligned_cols=149  Identities=20%  Similarity=0.218  Sum_probs=104.2

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCC---------------------------------CCCCccccceeEEEEEEEe
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQF---------------------------------DPTSKVTVGASFLSQTIAL   77 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~---------------------------------~~~~~~~~~~~~~~~~~~~   77 (202)
                      +..++.+-+|...-||||||-||+....                                 .......++.+..+..+..
T Consensus         4 k~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFsT   83 (431)
T COG2895           4 KSLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFST   83 (431)
T ss_pred             ccceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeeccc
Confidence            4579999999999999999999986411                                 1122344666666666654


Q ss_pred             cCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC
Q 028884           78 QDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV  157 (202)
Q Consensus        78 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~  157 (202)
                      ..   ..|.+-||||++.|......-...||++|+++|+..+- +++.+. ...+...-. -..+++++||+|+..-.+.
T Consensus        84 ~K---RkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gv-l~QTrR-Hs~I~sLLG-IrhvvvAVNKmDLvdy~e~  157 (431)
T COG2895          84 EK---RKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGV-LEQTRR-HSFIASLLG-IRHVVVAVNKMDLVDYSEE  157 (431)
T ss_pred             cc---ceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhh-HHHhHH-HHHHHHHhC-CcEEEEEEeeecccccCHH
Confidence            44   67999999999999887777778899999999997652 222222 222222211 1338888999999875443


Q ss_pred             C----hHHHHHHHHHcCC---eEEEeccCCCCCHH
Q 028884          158 P----AQDGIEYAEKNGM---FFIETSAKTADNIN  185 (202)
Q Consensus       158 ~----~~~~~~~~~~~~~---~~~~~s~~~~~~i~  185 (202)
                      .    ..+-..++..++.   .++++||..|+|+.
T Consensus       158 ~F~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~  192 (431)
T COG2895         158 VFEAIVADYLAFAAQLGLKDVRFIPISALLGDNVV  192 (431)
T ss_pred             HHHHHHHHHHHHHHHcCCCcceEEechhccCCccc
Confidence            2    3344556666665   48999999999875

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=99.53  E-value=1.5e-13  Score=101.04  Aligned_cols=162  Identities=17%  Similarity=0.162  Sum_probs=92.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCc--cccceeEEEEEEEecCCcEEEEEEEeCCChhh-------hhh-c---c
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSK--VTVGASFLSQTIALQDSTTVKFEIWDTAGQER-------YAA-L---A  100 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~-~---~  100 (202)
                      ++|+|+|.+|+||||++|.+++........  ...+...........+   ..+.++||||...       ... .   .
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g---~~v~VIDTPGl~d~~~~~~~~~~~i~~~l   77 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDG---RQVTVIDTPGLFDSDGSDEEIIREIKRCL   77 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETT---EEEEEEE--SSEETTEEHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecc---eEEEEEeCCCCCCCcccHHHHHHHHHHHH
Confidence            689999999999999999999977544331  1222222222223222   5899999999321       111 1   1


Q ss_pred             cccccCccEEEEEEeCCCh-hHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC-------hHHHHHHHHHcCCe
Q 028884          101 PLYYRGAAVAVVVYDITSP-DSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP-------AQDGIEYAEKNGMF  172 (202)
Q Consensus       101 ~~~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~-------~~~~~~~~~~~~~~  172 (202)
                      ....++.+++|||+....- ..-....+++..+.... .-..++||+|..|........       ......+.+.++-.
T Consensus        78 ~~~~~g~ha~llVi~~~r~t~~~~~~l~~l~~~FG~~-~~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~li~~c~~R  156 (212)
T PF04548_consen   78 SLCSPGPHAFLLVIPLGRFTEEDREVLELLQEIFGEE-IWKHTIVVFTHADELEDDSLEDYLKKESNEALQELIEKCGGR  156 (212)
T ss_dssp             HHTTT-ESEEEEEEETTB-SHHHHHHHHHHHHHHCGG-GGGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HhccCCCeEEEEEEecCcchHHHHHHHHHHHHHccHH-HHhHhhHHhhhccccccccHHHHHhccCchhHhHHhhhcCCE
Confidence            2235678999999999832 11222233333333221 123488889988865544311       12244566677888


Q ss_pred             EEEeccC------CCCCHHHHHHHHHHHcCCCC
Q 028884          173 FIETSAK------TADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       173 ~~~~s~~------~~~~i~~~~~~l~~~i~~~~  199 (202)
                      |+.++.+      ....+.++++.+-+.+.++.
T Consensus       157 ~~~f~n~~~~~~~~~~qv~~Ll~~ie~mv~~n~  189 (212)
T PF04548_consen  157 YHVFNNKTKDKEKDESQVSELLEKIEEMVQENG  189 (212)
T ss_dssp             EEECCTTHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             EEEEeccccchhhhHHHHHHHHHHHHHHHHHcC
Confidence            8887766      33457888888777765543

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 ....

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

Probab=99.51  E-value=1.1e-12  Score=105.58  Aligned_cols=165  Identities=20%  Similarity=0.254  Sum_probs=121.4

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ...+.+++.|+|+.++|||.|++.++++.+......+....+....+... +....+.+.|.+-. ....+...- ..+|
T Consensus       421 ~~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~-g~~k~LiL~ei~~~-~~~~l~~ke-~~cD  497 (625)
T KOG1707|consen  421 TDRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVK-GQQKYLILREIGED-DQDFLTSKE-AACD  497 (625)
T ss_pred             ccceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeec-cccceEEEeecCcc-ccccccCcc-ceee
Confidence            33568999999999999999999999988877544444455544444444 44356777777654 222232222 6799


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCe-EEEeccCCCCCHHHH
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMF-FIETSAKTADNINQL  187 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~s~~~~~~i~~~  187 (202)
                      +++++||.+++.+|..+...++.-...  .+.||++|++|+|+.+..+.......+++.+++++ .+.+|.+.... .++
T Consensus       498 v~~~~YDsS~p~sf~~~a~v~~~~~~~--~~~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i~~P~~~S~~~~~s-~~l  574 (625)
T KOG1707|consen  498 VACLVYDSSNPRSFEYLAEVYNKYFDL--YKIPCLMVATKADLDEVPQRYSIQPDEFCRQLGLPPPIHISSKTLSS-NEL  574 (625)
T ss_pred             eEEEecccCCchHHHHHHHHHHHhhhc--cCCceEEEeeccccchhhhccCCChHHHHHhcCCCCCeeeccCCCCC-chH
Confidence            999999999999999887766655443  57999999999999876554444448889998886 67777775333 899


Q ss_pred             HHHHHHHcCCCC
Q 028884          188 FEEIAKRLPRPS  199 (202)
Q Consensus       188 ~~~l~~~i~~~~  199 (202)
                      |..|+.+..-|+
T Consensus       575 f~kL~~~A~~Ph  586 (625)
T KOG1707|consen  575 FIKLATMAQYPH  586 (625)
T ss_pred             HHHHHHhhhCCC
Confidence            999999887765

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.50  E-value=7.9e-13  Score=99.09  Aligned_cols=123  Identities=16%  Similarity=0.153  Sum_probs=71.2

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccc-cceeEEEEEEEecCCcEEEEEEEeCCChhhhh---------
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVT-VGASFLSQTIALQDSTTVKFEIWDTAGQERYA---------   97 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------   97 (202)
                      ......++|+|+|.+|+|||||+|++++.......... .+.........  .+. ..+.++||||.....         
T Consensus        26 ~~~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~--~~g-~~i~vIDTPGl~~~~~~~~~~~~~  102 (249)
T cd01853          26 EELDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGT--VDG-FKLNIIDTPGLLESVMDQRVNRKI  102 (249)
T ss_pred             hhccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEE--ECC-eEEEEEECCCcCcchhhHHHHHHH
Confidence            45567899999999999999999999997654332221 12222111111  122 578999999965331         


Q ss_pred             -hccccccc--CccEEEEEEeCCCh-hHHHHHHHHHHHHHHcCCC--CCeEEEEEeCCCCCCC
Q 028884           98 -ALAPLYYR--GAAVAVVVYDITSP-DSFNKAQYWVKELQKHGSP--DIVMALVGNKADLHEK  154 (202)
Q Consensus        98 -~~~~~~~~--~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~--~~p~ivv~nK~D~~~~  154 (202)
                       .....++.  ..|++++|..++.. .... ....++.+......  -.++++|.||+|...+
T Consensus       103 ~~~I~~~l~~~~idvIL~V~rlD~~r~~~~-d~~llk~I~e~fG~~i~~~~ivV~T~~d~~~p  164 (249)
T cd01853         103 LSSIKRYLKKKTPDVVLYVDRLDMYRRDYL-DLPLLRAITDSFGPSIWRNAIVVLTHAASSPP  164 (249)
T ss_pred             HHHHHHHHhccCCCEEEEEEcCCCCCCCHH-HHHHHHHHHHHhChhhHhCEEEEEeCCccCCC
Confidence             00122332  46888888766542 1111 12233333322111  2458999999998643

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.

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.49  E-value=1.6e-13  Score=108.46  Aligned_cols=160  Identities=16%  Similarity=0.165  Sum_probs=109.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh----------hhh-c
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER----------YAA-L   99 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~-~   99 (202)
                      ++.-.++|+|-|++|||||+|.+.............+....   +...+-...+++++||||...          ..+ .
T Consensus       166 p~trTlllcG~PNVGKSSf~~~vtradvevqpYaFTTksL~---vGH~dykYlrwQViDTPGILD~plEdrN~IEmqsIT  242 (620)
T KOG1490|consen  166 PNTRTLLVCGYPNVGKSSFNNKVTRADDEVQPYAFTTKLLL---VGHLDYKYLRWQVIDTPGILDRPEEDRNIIEMQIIT  242 (620)
T ss_pred             CCcCeEEEecCCCCCcHhhcccccccccccCCcccccchhh---hhhhhhheeeeeecCCccccCcchhhhhHHHHHHHH
Confidence            44678899999999999999999987765444433222222   222233346899999999322          111 1


Q ss_pred             ccccccCccEEEEEEeCC--ChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHH--HHH-HHHHcCCeEE
Q 028884          100 APLYYRGAAVAVVVYDIT--SPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQD--GIE-YAEKNGMFFI  174 (202)
Q Consensus       100 ~~~~~~~~d~~i~v~d~~--~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~--~~~-~~~~~~~~~~  174 (202)
                      ....++  .+|+|+.|++  ++.|.+...+.++.|... -.++|.|+|+||+|+......+.+.  ..+ +...-+++++
T Consensus       243 ALAHLr--aaVLYfmDLSe~CGySva~QvkLfhsIKpL-FaNK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~  319 (620)
T KOG1490|consen  243 ALAHLR--SAVLYFMDLSEMCGYSVAAQVKLYHSIKPL-FANKVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVV  319 (620)
T ss_pred             HHHHhh--hhheeeeechhhhCCCHHHHHHHHHHhHHH-hcCCceEEEeecccccCccccCHHHHHHHHHHHhccCceEE
Confidence            111222  5788899988  567888888888888766 2478899999999987766554433  222 2333458899


Q ss_pred             EeccCCCCCHHHHHHHHHHHcC
Q 028884          175 ETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       175 ~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      +.|+.+.+|+.++-...++.+.
T Consensus       320 ~tS~~~eegVm~Vrt~ACe~LL  341 (620)
T KOG1490|consen  320 QTSCVQEEGVMDVRTTACEALL  341 (620)
T ss_pred             EecccchhceeeHHHHHHHHHH
Confidence            9999999999988777766654

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=99.48  E-value=1.6e-12  Score=99.11  Aligned_cols=120  Identities=15%  Similarity=0.159  Sum_probs=68.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCcc-ccceeEEEEEEEecCCcEEEEEEEeCCChhhhh-------hcccc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGASFLSQTIALQDSTTVKFEIWDTAGQERYA-------ALAPL  102 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~~  102 (202)
                      .+.++|+|+|.+|+||||++|++++......... ..+.......... +  ...+.++||||.....       .....
T Consensus        36 ~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~-~--G~~l~VIDTPGL~d~~~~~e~~~~~ik~  112 (313)
T TIGR00991        36 VSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTR-A--GFTLNIIDTPGLIEGGYINDQAVNIIKR  112 (313)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEE-C--CeEEEEEECCCCCchHHHHHHHHHHHHH
Confidence            5689999999999999999999998764322211 1111111111111 2  2689999999955321       11111


Q ss_pred             cc--cCccEEEEEEeCCC--hhHH-HHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884          103 YY--RGAAVAVVVYDITS--PDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus       103 ~~--~~~d~~i~v~d~~~--~~s~-~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                      ++  ...|++|||..++.  .... ..+.+.+..+... ..-.+.+|++|+.|....
T Consensus       113 ~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~-~iw~~~IVVfTh~d~~~p  168 (313)
T TIGR00991       113 FLLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGK-DIWRKSLVVLTHAQFSPP  168 (313)
T ss_pred             HhhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhh-hhhccEEEEEECCccCCC
Confidence            11  25899999966542  2211 2222222222211 112458999999997643

>cd00066 G-alpha G protein alpha subunit

Probab=99.47  E-value=1.2e-12  Score=101.76  Aligned_cols=117  Identities=15%  Similarity=0.240  Sum_probs=83.7

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCCh----------hHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCC
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSP----------DSFNKAQYWVKELQKH-GSPDIVMALVGNKADL  151 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~  151 (202)
                      +.+.+||++|+...+..|..++.+++++|+|+|+++.          ..+.+....++.+... .-.++|++|++||.|+
T Consensus       161 ~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D~  240 (317)
T cd00066         161 LKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKDL  240 (317)
T ss_pred             eEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChHH
Confidence            5788999999999999999999999999999999974          3344444444443332 2357999999999996


Q ss_pred             CCC----------------CCCChHHHHHHHHH----------cCCeEEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          152 HEK----------------REVPAQDGIEYAEK----------NGMFFIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       152 ~~~----------------~~~~~~~~~~~~~~----------~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      .++                .....+.+..+...          ..+.+..++|.+..++..+|+.+.+.|....
T Consensus       241 f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~~~~  314 (317)
T cd00066         241 FEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIILQNN  314 (317)
T ss_pred             HHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHHHHH
Confidence            421                02233444444332          1233567899999999999999998876544

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.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.47  E-value=1.9e-12  Score=112.70  Aligned_cols=146  Identities=18%  Similarity=0.147  Sum_probs=96.0

Q ss_pred             cHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcE---------------EEEEEEeCCChhhhhhcccccccCccE
Q 028884           45 GKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTT---------------VKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        45 GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      +||||+.++.+........-.++.++....+.+.....               -.+.||||||++.|..+.......+|+
T Consensus       473 ~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~~~aDi  552 (1049)
T PRK14845        473 HNTTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGGSLADL  552 (1049)
T ss_pred             ccccHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhcccCCE
Confidence            39999999998776555555555555544444432110               138999999999998887778888999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCCh------------HH-HHHH----------H
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPA------------QD-GIEY----------A  166 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~------------~~-~~~~----------~  166 (202)
                      +++|+|++++...+ ....+..+..   .++|+++|+||+|+........            +. ..++          .
T Consensus       553 vlLVVDa~~Gi~~q-T~e~I~~lk~---~~iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~~~~el~~~l~~v~~~L  628 (1049)
T PRK14845        553 AVLVVDINEGFKPQ-TIEAINILRQ---YKTPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQHALTELEIKLYELIGKL  628 (1049)
T ss_pred             EEEEEECcccCCHh-HHHHHHHHHH---cCCCEEEEEECCCCccccccccchhhhhhhhhhHHHHHHHHHHHHHHHhhHH
Confidence            99999998742211 1222233333   2679999999999864322100            00 0000          0


Q ss_pred             HH---------------cCCeEEEeccCCCCCHHHHHHHHHHH
Q 028884          167 EK---------------NGMFFIETSAKTADNINQLFEEIAKR  194 (202)
Q Consensus       167 ~~---------------~~~~~~~~s~~~~~~i~~~~~~l~~~  194 (202)
                      ..               ...+++++||++|.|+++++.+|...
T Consensus       629 ~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l  671 (1049)
T PRK14845        629 YELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGL  671 (1049)
T ss_pred             HhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHh
Confidence            11               13578999999999999999888643

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.46  E-value=2.4e-12  Score=99.37  Aligned_cols=116  Identities=17%  Similarity=0.284  Sum_probs=80.5

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHH-------HHHHHHHHHHHHcC----CCCCeEEEEEeCCCC
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSF-------NKAQYWVKELQKHG----SPDIVMALVGNKADL  151 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~-------~~~~~~~~~i~~~~----~~~~p~ivv~nK~D~  151 (202)
                      ..+.++|.+|+..-+..|.+++.+++++|+|+++++.+-.       ..+.+-++.+...+    =.+.++|+++||.|+
T Consensus       195 ~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK~DL  274 (354)
T KOG0082|consen  195 LKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILFLNKKDL  274 (354)
T ss_pred             CceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEEeecHHH
Confidence            5789999999999999999999999999999999875321       12222223333322    236889999999998


Q ss_pred             CCCC---------------CCChHHHHHHHHH--------c--CCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          152 HEKR---------------EVPAQDGIEYAEK--------N--GMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       152 ~~~~---------------~~~~~~~~~~~~~--------~--~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      -++.               ....+++..+...        .  .+-+..+.|.+..+|+.+|+++.+.|...
T Consensus       275 FeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d~Ii~~  346 (354)
T KOG0082|consen  275 FEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTDTIIQN  346 (354)
T ss_pred             HHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHHHHHHH
Confidence            5321               1233344433322        1  22356678999999999999999887654

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.46  E-value=4e-13  Score=114.76  Aligned_cols=118  Identities=16%  Similarity=0.165  Sum_probs=77.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCC---------------CCCC---CccccceeEEEEEEEecCCcEEEEEEEeCCC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQ---------------FDPT---SKVTVGASFLSQTIALQDSTTVKFEIWDTAG   92 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~---------------~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   92 (202)
                      ....+|+++|+.++|||||+++|+...               +...   ...+.........+... ...+.+.+|||||
T Consensus        17 ~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~-~~~~~i~liDTPG   95 (720)
T TIGR00490        17 KFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYE-GNEYLINLIDTPG   95 (720)
T ss_pred             ccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeec-CCceEEEEEeCCC
Confidence            356899999999999999999998521               1100   01111111111122222 3347899999999


Q ss_pred             hhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           93 QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        93 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      +..|.......++.+|++|+|+|+..+...+....| ..+.   ..+.|+++++||+|...
T Consensus        96 ~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~-~~~~---~~~~p~ivviNKiD~~~  152 (720)
T TIGR00490        96 HVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVL-RQAL---KENVKPVLFINKVDRLI  152 (720)
T ss_pred             ccccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHH-HHHH---HcCCCEEEEEEChhccc
Confidence            998887778889999999999999875322222222 2222   23577889999999754

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.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.44  E-value=4.8e-13  Score=100.27  Aligned_cols=96  Identities=22%  Similarity=0.288  Sum_probs=77.9

Q ss_pred             hhhhhcccccccCccEEEEEEeCCChh-HHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCe
Q 028884           94 ERYAALAPLYYRGAAVAVVVYDITSPD-SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMF  172 (202)
Q Consensus        94 ~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~  172 (202)
                      +++..+.+.+++++|++++|+|+.++. ++..+.+|+..+..   .++|+++|+||+|+.+......+.. ......+.+
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~NK~DL~~~~~~~~~~~-~~~~~~g~~   99 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLNKIDLLDDEDMEKEQL-DIYRNIGYQ   99 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccCCCHHHHHHHH-HHHHHCCCe
Confidence            667788888999999999999999886 89999999887654   4789999999999975443332333 334457889


Q ss_pred             EEEeccCCCCCHHHHHHHHHH
Q 028884          173 FIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       173 ~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      ++++|++++.|++++|+.+..
T Consensus       100 v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157       100 VLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             EEEEecCCchhHHHHHhhhcC
Confidence            999999999999999998764

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

>TIGR00101 ureG urease accessory protein UreG

Probab=99.44  E-value=2.7e-12  Score=93.29  Aligned_cols=104  Identities=20%  Similarity=0.166  Sum_probs=66.3

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHH
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDG  162 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  162 (202)
                      ..+.++++.|..-......   .-+|.+|.|+|+.+.++...  .+...+      ...-++++||+|+.+......+..
T Consensus        92 ~D~iiIEt~G~~l~~~~~~---~l~~~~i~vvD~~~~~~~~~--~~~~qi------~~ad~~~~~k~d~~~~~~~~~~~~  160 (199)
T TIGR00101        92 LEMVFIESGGDNLSATFSP---ELADLTIFVIDVAAGDKIPR--KGGPGI------TRSDLLVINKIDLAPMVGADLGVM  160 (199)
T ss_pred             CCEEEEECCCCCcccccch---hhhCcEEEEEEcchhhhhhh--hhHhHh------hhccEEEEEhhhccccccccHHHH
Confidence            4677888888432222221   12688999999998654321  111111      112388899999875322233333


Q ss_pred             HHHHHH--cCCeEEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          163 IEYAEK--NGMFFIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       163 ~~~~~~--~~~~~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      .+..+.  .+.+++++|+++|.|+.++|++|.++.+-
T Consensus       161 ~~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~~~  197 (199)
T TIGR00101       161 ERDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYALL  197 (199)
T ss_pred             HHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhcCc
Confidence            333333  46789999999999999999999987653

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.

>PRK13768 GTPase; Provisional

Probab=99.43  E-value=9.9e-13  Score=99.09  Aligned_cols=112  Identities=21%  Similarity=0.192  Sum_probs=69.8

Q ss_pred             EEEEEeCCChhhh---hhccccccc---C--ccEEEEEEeCCChhHHHHH--HHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           84 KFEIWDTAGQERY---AALAPLYYR---G--AAVAVVVYDITSPDSFNKA--QYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        84 ~~~i~D~~G~~~~---~~~~~~~~~---~--~d~~i~v~d~~~~~s~~~~--~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      .+.+||+||..+.   +..+..+++   .  .+++++++|+.........  ..|+...... ..++|+++|+||+|+..
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~-~~~~~~i~v~nK~D~~~  176 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQL-RLGLPQIPVLNKADLLS  176 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHH-HcCCCEEEEEEhHhhcC
Confidence            6899999997653   222222222   2  7999999999754322221  2233222222 24789999999999875


Q ss_pred             CCCCChHH--HH------------------------HHHHHcC--CeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          154 KREVPAQD--GI------------------------EYAEKNG--MFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       154 ~~~~~~~~--~~------------------------~~~~~~~--~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      ..+.....  ..                        +.....+  .+++++|++++.|+++++++|.+.+.
T Consensus       177 ~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l~  247 (253)
T PRK13768        177 EEELERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVFC  247 (253)
T ss_pred             chhHHHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHcC
Confidence            43221100  00                        1111223  47899999999999999999998875

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.42  E-value=3.9e-12  Score=108.98  Aligned_cols=119  Identities=13%  Similarity=0.080  Sum_probs=77.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCC--CCC--------------ccccceeEEEEEEEe-cCCcEEEEEEEeCCCh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFD--PTS--------------KVTVGASFLSQTIAL-QDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~--~~~--------------~~~~~~~~~~~~~~~-~~~~~~~~~i~D~~G~   93 (202)
                      ++..+|+++|+.++|||||+++|+...-.  ...              ...++.......+.+ .++....+.++||||+
T Consensus        18 ~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG~   97 (731)
T PRK07560         18 EQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPGH   97 (731)
T ss_pred             hcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCCc
Confidence            45678999999999999999999863210  000              000111111111111 1223378999999999


Q ss_pred             hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           94 ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        94 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      ..|.......++.+|++|+|+|+..+.......-| ......   +.|.++++||+|+..
T Consensus        98 ~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~-~~~~~~---~~~~iv~iNK~D~~~  153 (731)
T PRK07560         98 VDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVL-RQALRE---RVKPVLFINKVDRLI  153 (731)
T ss_pred             cChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHH-HHHHHc---CCCeEEEEECchhhc
Confidence            98888788889999999999999876333222222 222222   467899999999753

>PTZ00258 GTP-binding protein; Provisional

Probab=99.42  E-value=4.9e-12  Score=99.82  Aligned_cols=88  Identities=16%  Similarity=0.106  Sum_probs=58.8

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCc--------------EEEEEEEeCCChhh
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDST--------------TVKFEIWDTAGQER   95 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~i~D~~G~~~   95 (202)
                      ....++|.++|.||+|||||+|.|.+........+..+.+.....+.+.+..              ...+.++|+||...
T Consensus        18 ~~~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~   97 (390)
T PTZ00258         18 PGNNLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVK   97 (390)
T ss_pred             CCCCcEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCc
Confidence            3567899999999999999999998876543333443434434334333221              23589999999532


Q ss_pred             -------hhhcccccccCccEEEEEEeCC
Q 028884           96 -------YAALAPLYYRGAAVAVVVYDIT  117 (202)
Q Consensus        96 -------~~~~~~~~~~~~d~~i~v~d~~  117 (202)
                             ........++.+|++++|+|..
T Consensus        98 ga~~g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258         98 GASEGEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             CCcchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence                   1122233467899999999973

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.41  E-value=1.4e-12  Score=113.08  Aligned_cols=119  Identities=16%  Similarity=0.120  Sum_probs=80.3

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCC--C----------C----CccccceeEEEEEEEec-------------CC
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFD--P----------T----SKVTVGASFLSQTIALQ-------------DS   80 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~--~----------~----~~~~~~~~~~~~~~~~~-------------~~   80 (202)
                      ..+..+|+|+|+.++|||||+++|+...-.  .          .    .....+.......+.+.             ..
T Consensus        16 ~~~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~~   95 (843)
T PLN00116         16 KHNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERDG   95 (843)
T ss_pred             ccCccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccCC
Confidence            345789999999999999999999864310  0          0    00111111111112221             12


Q ss_pred             cEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 028884           81 TTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH  152 (202)
Q Consensus        81 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~  152 (202)
                      ..+.+.++||||+..|.......++.+|++|+|+|+..+-......-| ..+.   ..++|+++++||+|+.
T Consensus        96 ~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~-~~~~---~~~~p~i~~iNK~D~~  163 (843)
T PLN00116         96 NEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVL-RQAL---GERIRPVLTVNKMDRC  163 (843)
T ss_pred             CceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHH-HHHH---HCCCCEEEEEECCccc
Confidence            247889999999999988888889999999999999987443332322 2233   3468899999999976

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=99.41  E-value=1.9e-12  Score=95.57  Aligned_cols=171  Identities=16%  Similarity=0.187  Sum_probs=95.0

Q ss_pred             CCCCCceeeEEEEcCCCCcHHHHHHHHHhCCC---CCC----CccccceeEEEEEEEe---------------c-CCc--
Q 028884           27 SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQF---DPT----SKVTVGASFLSQTIAL---------------Q-DST--   81 (202)
Q Consensus        27 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~---~~~----~~~~~~~~~~~~~~~~---------------~-~~~--   81 (202)
                      +...++...|+|+|..|||||||+.+|.....   .+.    .+|.........++.+               . ++.  
T Consensus        13 ~~~~~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNGgI~   92 (366)
T KOG1532|consen   13 SGAIQRPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNGGIV   92 (366)
T ss_pred             cccccCCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCcchh
Confidence            34456788999999999999999999976321   111    1111111110111100               0 111  


Q ss_pred             ----------------------EEEEEEEeCCChhhhh------hccccccc--CccEEEEEEeCCChhHHHH-HHHHHH
Q 028884           82 ----------------------TVKFEIWDTAGQERYA------ALAPLYYR--GAAVAVVVYDITSPDSFNK-AQYWVK  130 (202)
Q Consensus        82 ----------------------~~~~~i~D~~G~~~~~------~~~~~~~~--~~d~~i~v~d~~~~~s~~~-~~~~~~  130 (202)
                                            ...+.++||||+-+.-      ......+.  ..-++++++|..+..+... +.+.+=
T Consensus        93 TsLNLF~tk~dqv~~~iek~~~~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlY  172 (366)
T KOG1532|consen   93 TSLNLFATKFDQVIELIEKRAEEFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLY  172 (366)
T ss_pred             hhHHHHHHHHHHHHHHHHHhhcccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHH
Confidence                                  1468999999975421      11111122  2357888999765433222 122211


Q ss_pred             HHHHcCCCCCeEEEEEeCCCCCCCCCC--------ChHHHHH-------------HH-----HHcCCeEEEeccCCCCCH
Q 028884          131 ELQKHGSPDIVMALVGNKADLHEKREV--------PAQDGIE-------------YA-----EKNGMFFIETSAKTADNI  184 (202)
Q Consensus       131 ~i~~~~~~~~p~ivv~nK~D~~~~~~~--------~~~~~~~-------------~~-----~~~~~~~~~~s~~~~~~i  184 (202)
                      .-.-......|+|++.||+|+......        ..+++..             .+     .-.++..+-+|+.+|.|.
T Consensus       173 AcSilyktklp~ivvfNK~Dv~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~  252 (366)
T KOG1532|consen  173 ACSILYKTKLPFIVVFNKTDVSDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGF  252 (366)
T ss_pred             HHHHHHhccCCeEEEEecccccccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcH
Confidence            111123457999999999998653210        0000110             00     012467899999999999


Q ss_pred             HHHHHHHHHHcCC
Q 028884          185 NQLFEEIAKRLPR  197 (202)
Q Consensus       185 ~~~~~~l~~~i~~  197 (202)
                      +++|..+.+.+.+
T Consensus       253 ddf~~av~~~vdE  265 (366)
T KOG1532|consen  253 DDFFTAVDESVDE  265 (366)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999998877654

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

Probab=99.41  E-value=9e-13  Score=85.82  Aligned_cols=136  Identities=21%  Similarity=0.200  Sum_probs=91.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCCh----hhhhhcccccccCccEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ----ERYAALAPLYYRGAAVA  110 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----~~~~~~~~~~~~~~d~~  110 (202)
                      ||+++|..|+|||||.+.|.+...-.  ..+...       .+.+     =-.+||||.    ..+..........+|++
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~ly--kKTQAv-------e~~d-----~~~IDTPGEy~~~~~~Y~aL~tt~~dadvi   68 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDTLY--KKTQAV-------EFND-----KGDIDTPGEYFEHPRWYHALITTLQDADVI   68 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchhhh--ccccee-------eccC-----ccccCCchhhhhhhHHHHHHHHHhhcccee
Confidence            79999999999999999999854321  111111       1111     114699993    22333334456679999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCe-EEEeccCCCCCHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE  189 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~s~~~~~~i~~~~~  189 (202)
                      ++|-.++++++.-.     ..+...  -..|+|-|++|.|+.+..  ......+|..+.+.. +|.+|+.++.|++++++
T Consensus        69 ~~v~~and~~s~f~-----p~f~~~--~~k~vIgvVTK~DLaed~--dI~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~  139 (148)
T COG4917          69 IYVHAANDPESRFP-----PGFLDI--GVKKVIGVVTKADLAEDA--DISLVKRWLREAGAEPIFETSAVDNQGVEELVD  139 (148)
T ss_pred             eeeecccCccccCC-----cccccc--cccceEEEEecccccchH--hHHHHHHHHHHcCCcceEEEeccCcccHHHHHH
Confidence            99999999854211     011111  134589999999998633  344566666666654 89999999999999999


Q ss_pred             HHHH
Q 028884          190 EIAK  193 (202)
Q Consensus       190 ~l~~  193 (202)
                      +|..
T Consensus       140 ~L~~  143 (148)
T COG4917         140 YLAS  143 (148)
T ss_pred             HHHh
Confidence            9865

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.40  E-value=5.9e-12  Score=92.30  Aligned_cols=153  Identities=18%  Similarity=0.176  Sum_probs=86.6

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCC------------CCccccceeEEEEEEEecCCc------------------
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDP------------TSKVTVGASFLSQTIALQDST------------------   81 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~------------------   81 (202)
                      ....|.|+|..|+|||||+++++......            ..+...-.......+...++.                  
T Consensus        21 ~~~~i~~~G~~gsGKTTli~~l~~~~~~~~~v~v~~~~~~~~~D~~~~~~~~~~~~~l~~gcic~~~~~~~~~~l~~~~~  100 (207)
T TIGR00073        21 GLVVLNFMSSPGSGKTTLIEKLIDNLKDEVKIAVIEGDVITKFDAERLRKYGAPAIQINTGKECHLDAHMVAHALEDLPL  100 (207)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHhcCCeEEEEECCCCCcccHHHHHHcCCcEEEEcCCCcccCChHHHHHHHHHhcc
Confidence            46888999999999999999997641100            000000000000011111111                  


Q ss_pred             -EEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChH
Q 028884           82 -TVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQ  160 (202)
Q Consensus        82 -~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~  160 (202)
                       ...+.++|+.|.-....   .+....+..+.++|..+.+...  .....      ....|.++++||+|+.........
T Consensus       101 ~~~d~IiIEt~G~l~~~~---~~~~~~~~~i~Vvd~~~~d~~~--~~~~~------~~~~a~iiv~NK~Dl~~~~~~~~~  169 (207)
T TIGR00073       101 DDIDLLFIENVGNLVCPA---DFDLGEHMRVVLLSVTEGDDKP--LKYPG------MFKEADLIVINKADLAEAVGFDVE  169 (207)
T ss_pred             CCCCEEEEecCCCcCCCc---ccccccCeEEEEEecCcccchh--hhhHh------HHhhCCEEEEEHHHccccchhhHH
Confidence             14677888888211111   1112345667788887653211  11111      123567999999998754332233


Q ss_pred             HHHHHHHHc--CCeEEEeccCCCCCHHHHHHHHHHHc
Q 028884          161 DGIEYAEKN--GMFFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       161 ~~~~~~~~~--~~~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      ......+..  ..+++++|++++.|+.++++++.+..
T Consensus       170 ~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~~  206 (207)
T TIGR00073       170 KMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQV  206 (207)
T ss_pred             HHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            344434333  47899999999999999999998764

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

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.39  E-value=3.2e-11  Score=94.59  Aligned_cols=155  Identities=17%  Similarity=0.224  Sum_probs=92.2

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC----CCC------------CCCccc---cceeE-----EEEEEEecCCcEEEEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG----QFD------------PTSKVT---VGASF-----LSQTIALQDSTTVKFEIW   88 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~----~~~------------~~~~~~---~~~~~-----~~~~~~~~~~~~~~~~i~   88 (202)
                      .+.|.|+|+.++|||||||+|.+.    ...            +...+.   .+++.     ....+...++-...+.++
T Consensus        17 ~IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~VrlI   96 (492)
T TIGR02836        17 DIYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRLV   96 (492)
T ss_pred             cEEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEEE
Confidence            589999999999999999999987    222            111111   11111     112233334444789999


Q ss_pred             eCCChhhhh-----------------------------hccccccc-CccEEEEEE-eCC----ChhHH-HHHHHHHHHH
Q 028884           89 DTAGQERYA-----------------------------ALAPLYYR-GAAVAVVVY-DIT----SPDSF-NKAQYWVKEL  132 (202)
Q Consensus        89 D~~G~~~~~-----------------------------~~~~~~~~-~~d~~i~v~-d~~----~~~s~-~~~~~~~~~i  132 (202)
                      ||+|...-.                             .-++..+. .+|+.|+|. |.+    .++.+ +.-..++..+
T Consensus        97 DcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~eL  176 (492)
T TIGR02836        97 DCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEEL  176 (492)
T ss_pred             ECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHHH
Confidence            999932110                             00233344 789999988 875    11112 2335566666


Q ss_pred             HHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCC--CCCHHHHHHHHH
Q 028884          133 QKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT--ADNINQLFEEIA  192 (202)
Q Consensus       133 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~--~~~i~~~~~~l~  192 (202)
                      +..   ++|+++|+|+.|.....  ..+....+..+++.+++.+|+..  ..++..+++.++
T Consensus       177 k~~---~kPfiivlN~~dp~~~e--t~~l~~~l~eky~vpvl~v~c~~l~~~DI~~il~~vL  233 (492)
T TIGR02836       177 KEL---NKPFIILLNSTHPYHPE--TEALRQELEEKYDVPVLAMDVESMRESDILSVLEEVL  233 (492)
T ss_pred             Hhc---CCCEEEEEECcCCCCch--hHHHHHHHHHHhCCceEEEEHHHcCHHHHHHHHHHHH
Confidence            654   79999999999933221  23334455566788877777544  344555555444

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.

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=99.39  E-value=3.2e-12  Score=99.91  Aligned_cols=159  Identities=16%  Similarity=0.165  Sum_probs=80.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCC-CCCCccccce--eEEEEEEEecCCcEEEEEEEeCCChhhhh-----hccccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQF-DPTSKVTVGA--SFLSQTIALQDSTTVKFEIWDTAGQERYA-----ALAPLY  103 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~--~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-----~~~~~~  103 (202)
                      ..++|+|+|.+|+|||||||.|.+-.- ++...++...  ......+..++..  .+.+||.||.....     .+...-
T Consensus        34 ~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p~~p--nv~lWDlPG~gt~~f~~~~Yl~~~~  111 (376)
T PF05049_consen   34 APLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHPKFP--NVTLWDLPGIGTPNFPPEEYLKEVK  111 (376)
T ss_dssp             --EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-SS-T--TEEEEEE--GGGSS--HHHHHHHTT
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCCCCC--CCeEEeCCCCCCCCCCHHHHHHHcc
Confidence            468999999999999999999976322 1222222221  2222233333333  69999999943211     111223


Q ss_pred             ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCC-------CCCCCCChH----HHHHHHHH----
Q 028884          104 YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL-------HEKREVPAQ----DGIEYAEK----  168 (202)
Q Consensus       104 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~-------~~~~~~~~~----~~~~~~~~----  168 (202)
                      +...|.+|++.+..=..   .-......++++   ++|+++|-+|.|.       ..+.....+    ++++.|.+    
T Consensus       112 ~~~yD~fiii~s~rf~~---ndv~La~~i~~~---gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~~c~~~L~k  185 (376)
T PF05049_consen  112 FYRYDFFIIISSERFTE---NDVQLAKEIQRM---GKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRENCLENLQK  185 (376)
T ss_dssp             GGG-SEEEEEESSS--H---HHHHHHHHHHHT---T-EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHHHHHHHHHC
T ss_pred             ccccCEEEEEeCCCCch---hhHHHHHHHHHc---CCcEEEEEecccccHhhhhccCCcccCHHHHHHHHHHHHHHHHHH
Confidence            55679888876643321   112222345554   6889999999995       112223322    33333332    


Q ss_pred             c---CCeEEEeccCCC--CCHHHHHHHHHHHcCCC
Q 028884          169 N---GMFFIETSAKTA--DNINQLFEEIAKRLPRP  198 (202)
Q Consensus       169 ~---~~~~~~~s~~~~--~~i~~~~~~l~~~i~~~  198 (202)
                      .   ..++|.+|+.+-  .++..+.+.|...+...
T Consensus       186 ~gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~~  220 (376)
T PF05049_consen  186 AGVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPAH  220 (376)
T ss_dssp             TT-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-GG
T ss_pred             cCCCcCceEEEeCCCcccCChHHHHHHHHHHhHHH
Confidence            1   235888887665  56888888888777654

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.

>cd01882 BMS1 Bms1

Probab=99.39  E-value=9.5e-12  Score=92.28  Aligned_cols=141  Identities=14%  Similarity=0.138  Sum_probs=82.7

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGA  107 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~  107 (202)
                      ....+...|+|+|.+|+|||||++.+.+...........+. .   .+....  ...+.++|+||..  ..+ ....+.+
T Consensus        34 ~~~~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~-i---~i~~~~--~~~i~~vDtPg~~--~~~-l~~ak~a  104 (225)
T cd01882          34 PEEPPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP-I---TVVTGK--KRRLTFIECPNDI--NAM-IDIAKVA  104 (225)
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHhhcccCcccccccc-E---EEEecC--CceEEEEeCCchH--HHH-HHHHHhc
Confidence            33456788999999999999999999874211111111111 1   111112  2578999999864  222 2235779


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeE-EEEEeCCCCCCCCCCC---hHHHHH-HHH--HcCCeEEEeccCC
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVM-ALVGNKADLHEKREVP---AQDGIE-YAE--KNGMFFIETSAKT  180 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~-ivv~nK~D~~~~~~~~---~~~~~~-~~~--~~~~~~~~~s~~~  180 (202)
                      |++++++|++.+..... ...+..+...   +.|. ++|+||+|+.+.....   ..+... +..  ..+.+++.+||++
T Consensus       105 DvVllviDa~~~~~~~~-~~i~~~l~~~---g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~  180 (225)
T cd01882         105 DLVLLLIDASFGFEMET-FEFLNILQVH---GFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGIV  180 (225)
T ss_pred             CEEEEEEecCcCCCHHH-HHHHHHHHHc---CCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeecc
Confidence            99999999986533222 2333444333   4664 4599999986432111   111211 221  1346799999888


Q ss_pred             C
Q 028884          181 A  181 (202)
Q Consensus       181 ~  181 (202)
                      .
T Consensus       181 ~  181 (225)
T cd01882         181 H  181 (225)
T ss_pred             C
Confidence            7

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.

>smart00275 G_alpha G protein alpha subunit

Probab=99.38  E-value=1.9e-11  Score=95.80  Aligned_cols=116  Identities=14%  Similarity=0.228  Sum_probs=81.7

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCCh----------hHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCC
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSP----------DSFNKAQYWVKELQKH-GSPDIVMALVGNKADL  151 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~  151 (202)
                      ..+.+||.+|+...+..|..++.+++++|+|+|+++.          ..+.+....++.+... .-.++|++|++||.|+
T Consensus       184 ~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~  263 (342)
T smart00275      184 LFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKIDL  263 (342)
T ss_pred             eEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHHh
Confidence            4678999999999999999999999999999999973          2344444444444332 3357999999999997


Q ss_pred             CCCC---------------CCChHHHHHHHHH-----c------CCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          152 HEKR---------------EVPAQDGIEYAEK-----N------GMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       152 ~~~~---------------~~~~~~~~~~~~~-----~------~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      ..+.               ......+..+...     .      .+-++.++|.+..++..+|+.+.+.|..+
T Consensus       264 ~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~~~I~~~  336 (342)
T smart00275      264 FEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKDIILQR  336 (342)
T ss_pred             HHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHHHHHHHH
Confidence            4310               1122333333322     1      13356788999999999999988877643

Subunit of G proteins that contains the guanine nucleotide binding site

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=99.38  E-value=4.3e-12  Score=89.93  Aligned_cols=111  Identities=17%  Similarity=0.176  Sum_probs=70.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCC-----------------------------------
Q 028884           36 LVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDS-----------------------------------   80 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------------------   80 (202)
                      |+|+|..++|||||||.|++....+......+.............                                   
T Consensus         1 V~v~G~~ssGKSTliNaLlG~~ilp~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (168)
T PF00350_consen    1 VAVVGQFSSGKSTLINALLGRPILPSGVGPCTAVPTEISYGDEPEIEHEEAIIEFKDGSEEFEELNELREQIDEEFDSIE   80 (168)
T ss_dssp             EEEEEBTTSSHHHHHHHHHTSS-SSSSSSSTTSSEEEEEEEESSSCCTSEEEECEEEETEEBCCHHHHHHHHHHHHHHHH
T ss_pred             CEEEcCCCCCHHHHHHHHHhcccCcccccccccceeEEEecccCccccccccccccccccchhhHHHHHHhhhccccccc
Confidence            789999999999999999997754433322222111111110000                                   


Q ss_pred             ------------------cEEEEEEEeCCChhh----hhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCC
Q 028884           81 ------------------TTVKFEIWDTAGQER----YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSP  138 (202)
Q Consensus        81 ------------------~~~~~~i~D~~G~~~----~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~  138 (202)
                                        ....+.|+|+||...    ....+..+++.+|++|+|.+++...+-.....+.+.....   
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~---  157 (168)
T PF00350_consen   81 GKLEQISSKVIVISISSPLLRNLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPD---  157 (168)
T ss_dssp             TSSS-S-SSEEEEEEEETTSCSEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTT---
T ss_pred             ccccccccceeEEeeccccccceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCC---
Confidence                              002478999999643    3356777889999999999999975555555554444433   


Q ss_pred             CCeEEEEEeCC
Q 028884          139 DIVMALVGNKA  149 (202)
Q Consensus       139 ~~p~ivv~nK~  149 (202)
                      ...+++|.||.
T Consensus       158 ~~~~i~V~nk~  168 (168)
T PF00350_consen  158 KSRTIFVLNKA  168 (168)
T ss_dssp             CSSEEEEEE-G
T ss_pred             CCeEEEEEcCC
Confidence            33489999984

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 ....

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.37  E-value=1.9e-11  Score=94.86  Aligned_cols=103  Identities=14%  Similarity=0.078  Sum_probs=66.4

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC--ChH
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV--PAQ  160 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~--~~~  160 (202)
                      +.+.|+||+|...-...   ....+|.++++.+...++....+..   .+..     ..-++|+||+|+......  ...
T Consensus       149 ~d~viieT~Gv~qs~~~---i~~~aD~vlvv~~p~~gd~iq~~k~---gi~E-----~aDIiVVNKaDl~~~~~a~~~~~  217 (332)
T PRK09435        149 YDVILVETVGVGQSETA---VAGMVDFFLLLQLPGAGDELQGIKK---GIME-----LADLIVINKADGDNKTAARRAAA  217 (332)
T ss_pred             CCEEEEECCCCccchhH---HHHhCCEEEEEecCCchHHHHHHHh---hhhh-----hhheEEeehhcccchhHHHHHHH
Confidence            67899999997632222   3566999999987555544443332   1211     123899999998754321  111


Q ss_pred             HHHHHHHH-------cCCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          161 DGIEYAEK-------NGMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       161 ~~~~~~~~-------~~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      +.......       +..+++.+|++++.|++++++.|.+++.
T Consensus       218 el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~  260 (332)
T PRK09435        218 EYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRA  260 (332)
T ss_pred             HHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            22222211       2257999999999999999999998764

>PTZ00416 elongation factor 2; Provisional

Probab=99.37  E-value=3.8e-12  Score=110.21  Aligned_cols=118  Identities=14%  Similarity=0.127  Sum_probs=78.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCC--CCC--------------CccccceeEEEEEEEec-------CCcEEEEEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQF--DPT--------------SKVTVGASFLSQTIALQ-------DSTTVKFEI   87 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~--~~~--------------~~~~~~~~~~~~~~~~~-------~~~~~~~~i   87 (202)
                      +...+|+|+|+.++|||||+++|+...-  ...              ....++.......+.+.       ++....+.+
T Consensus        17 ~~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~l   96 (836)
T PTZ00416         17 DQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLINL   96 (836)
T ss_pred             cCcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEEE
Confidence            4466999999999999999999987321  000              00011111111112221       122367999


Q ss_pred             EeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 028884           88 WDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH  152 (202)
Q Consensus        88 ~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~  152 (202)
                      +||||+..|.......++.+|++|+|+|+..+-.... ...+..+..   .++|+++++||+|+.
T Consensus        97 iDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t-~~~~~~~~~---~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         97 IDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQT-ETVLRQALQ---ERIRPVLFINKVDRA  157 (836)
T ss_pred             EcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccH-HHHHHHHHH---cCCCEEEEEEChhhh
Confidence            9999999988777888999999999999998643332 223333333   358899999999986

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

Probab=99.36  E-value=1.9e-11  Score=82.06  Aligned_cols=114  Identities=33%  Similarity=0.472  Sum_probs=80.6

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCc-cccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSK-VTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      ++|+++|..|+|||+|+.++....+...+. ++..                            +......+.+.++.+++
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~----------------------------~~~~~~~~~~s~~~~~~   52 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG----------------------------IDVYDPTSYESFDVVLQ   52 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh----------------------------hhhccccccCCCCEEEE
Confidence            489999999999999999997766643222 2211                            23334556777899999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNIN  185 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~  185 (202)
                      ||+.....++..+  |+..+......+.|.++++||.|+.+..........        .++++|++++.|+.
T Consensus        53 v~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~~~~~~~~~~~--------~~~~~s~~~~~~~~  115 (124)
T smart00010       53 CWRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLEEERQVATEEGL--------EFAETSAKTPEEGE  115 (124)
T ss_pred             EEEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhHhhCcCCHHHHH--------HHHHHhCCCcchhh
Confidence            9999999888765  777666555567889999999997443333322222        35577888888874

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.

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=99.36  E-value=3.6e-12  Score=104.98  Aligned_cols=168  Identities=17%  Similarity=0.131  Sum_probs=108.4

Q ss_pred             CCCCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEec----------C-----CcEEEEEEE
Q 028884           24 AGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ----------D-----STTVKFEIW   88 (202)
Q Consensus        24 ~~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------~-----~~~~~~~i~   88 (202)
                      ++.+..+-+..-|||+|+..+|||-|+..+.+..+......+++..+....+...          .     -..--+.++
T Consensus       466 ~~~~~~~lRSPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvI  545 (1064)
T KOG1144|consen  466 ANESTENLRSPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVI  545 (1064)
T ss_pred             ccccchhcCCceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEe
Confidence            3344555667789999999999999999998854433333222222222211111          0     011247899


Q ss_pred             eCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC------------
Q 028884           89 DTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE------------  156 (202)
Q Consensus        89 D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~------------  156 (202)
                      ||||++.|..+.......||.+|+|+|+..+-..+.+.. +..++   .++.|+||++||+|..-.+.            
T Consensus       546 dtpghEsFtnlRsrgsslC~~aIlvvdImhGlepqtiES-i~lLR---~rktpFivALNKiDRLYgwk~~p~~~i~~~lk  621 (1064)
T KOG1144|consen  546 DTPGHESFTNLRSRGSSLCDLAILVVDIMHGLEPQTIES-INLLR---MRKTPFIVALNKIDRLYGWKSCPNAPIVEALK  621 (1064)
T ss_pred             cCCCchhhhhhhhccccccceEEEEeehhccCCcchhHH-HHHHH---hcCCCeEEeehhhhhhcccccCCCchHHHHHH
Confidence            999999999999999999999999999987633333322 23344   34799999999999743210            


Q ss_pred             -----CChHH-------HHHHHHH-c-------------CCeEEEeccCCCCCHHHHHHHHHHHc
Q 028884          157 -----VPAQD-------GIEYAEK-N-------------GMFFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       157 -----~~~~~-------~~~~~~~-~-------------~~~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                           +..+.       +.+|+.+ +             -+.++++||..|+|+.+++-+|++.-
T Consensus       622 kQ~k~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~lt  686 (1064)
T KOG1144|consen  622 KQKKDVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLT  686 (1064)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHH
Confidence                 00000       0111110 0             12478899999999999999988753

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.36  E-value=2.5e-11  Score=92.46  Aligned_cols=165  Identities=15%  Similarity=0.139  Sum_probs=101.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCC-------CCCccccceeEEEEE------EEecCCcEEEEEEEeCCChhhhhh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFD-------PTSKVTVGASFLSQT------IALQDSTTVKFEIWDTAGQERYAA   98 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~-------~~~~~~~~~~~~~~~------~~~~~~~~~~~~i~D~~G~~~~~~   98 (202)
                      ..+++.++|+..+|||||.++|..-...       ......++.+..-..      ...+.+....+.++|+||+...-.
T Consensus         6 ~n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHasLIR   85 (522)
T KOG0461|consen    6 SNLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHASLIR   85 (522)
T ss_pred             ceeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHHHHH
Confidence            3599999999999999999999763211       111112222221111      122345557899999999976544


Q ss_pred             cccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCC-CCChHH--HHHHHHHc------
Q 028884           99 LAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKR-EVPAQD--GIEYAEKN------  169 (202)
Q Consensus        99 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~-~~~~~~--~~~~~~~~------  169 (202)
                      .......-.|..++|+|+..+..-+..+-. -.-...+   ...+||+||.|...+. ..+..+  .....+.+      
T Consensus        86 tiiggaqiiDlm~lviDv~kG~QtQtAEcL-iig~~~c---~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~f~  161 (522)
T KOG0461|consen   86 TIIGGAQIIDLMILVIDVQKGKQTQTAECL-IIGELLC---KKLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTGFD  161 (522)
T ss_pred             HHHhhhheeeeeeEEEehhcccccccchhh-hhhhhhc---cceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcCcC
Confidence            444445556999999999876322222211 1111122   2378888988865442 222111  12222221      


Q ss_pred             -CCeEEEeccCCC----CCHHHHHHHHHHHcCCCCC
Q 028884          170 -GMFFIETSAKTA----DNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       170 -~~~~~~~s~~~~----~~i~~~~~~l~~~i~~~~~  200 (202)
                       +.+++++|+.+|    .++.++.+.|.+++.+++.
T Consensus       162 g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~P~R  197 (522)
T KOG0461|consen  162 GNSPIVEVSAADGYFKEEMIQELKEALESRIFEPKR  197 (522)
T ss_pred             CCCceeEEecCCCccchhHHHHHHHHHHHhhcCCCc
Confidence             368999999999    8899999999998887754

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=99.30  E-value=7.2e-13  Score=98.70  Aligned_cols=112  Identities=21%  Similarity=0.129  Sum_probs=58.7

Q ss_pred             EEEEEeCCChhhhhhcccccc--------cCccEEEEEEeCCChhHH-HHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884           84 KFEIWDTAGQERYAALAPLYY--------RGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus        84 ~~~i~D~~G~~~~~~~~~~~~--------~~~d~~i~v~d~~~~~s~-~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                      .+.++||||+.++...+....        ...-++++++|.....+. ..+..++..+..+...+.|.+.|+||+|+.+.
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            689999999887654443332        345688889998743221 22233333332222347999999999998762


Q ss_pred             CC------------C-------ChHHHHHHHHHc----CC-eEEEeccCCCCCHHHHHHHHHHHc
Q 028884          155 RE------------V-------PAQDGIEYAEKN----GM-FFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       155 ~~------------~-------~~~~~~~~~~~~----~~-~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      ..            .       .......++...    .. +++.+|+.+++++.+++..+-+.+
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            20            0       001111122211    23 699999999999999999876653

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.28  E-value=1.6e-10  Score=90.40  Aligned_cols=84  Identities=17%  Similarity=0.127  Sum_probs=55.0

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCc--------------EEEEEEEeCCChhh----
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDST--------------TVKFEIWDTAGQER----   95 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~i~D~~G~~~----   95 (202)
                      ++|.++|.|++|||||+|+|++........+..+.+.....+.+.+..              ...+.++|+||...    
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~~   82 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK   82 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCCh
Confidence            789999999999999999999977433333333333333333333211              13589999999432    


Q ss_pred             ---hhhcccccccCccEEEEEEeCC
Q 028884           96 ---YAALAPLYYRGAAVAVVVYDIT  117 (202)
Q Consensus        96 ---~~~~~~~~~~~~d~~i~v~d~~  117 (202)
                         ........++.+|++++|+|..
T Consensus        83 g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         83 GEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             HHHHHHHHHHHHHhCCEEEEEEeCC
Confidence               1112333467899999999984

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=99.27  E-value=1.1e-10  Score=96.51  Aligned_cols=125  Identities=16%  Similarity=0.165  Sum_probs=73.4

Q ss_pred             CCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCcc-ccceeEEEEEEEecCCcEEEEEEEeCCChhhhh-------
Q 028884           26 SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGASFLSQTIALQDSTTVKFEIWDTAGQERYA-------   97 (202)
Q Consensus        26 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------   97 (202)
                      ..++.+..++|+|+|.+|+||||++|++++......... ..++......... ++  ..+.++||||.....       
T Consensus       111 g~~~LdfslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr~~ei~~~i-dG--~~L~VIDTPGL~dt~~dq~~ne  187 (763)
T TIGR00993       111 GQDPLDFSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLV-QG--VKIRVIDTPGLKSSASDQSKNE  187 (763)
T ss_pred             hccccCcceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceEEEEEEEEE-CC--ceEEEEECCCCCccccchHHHH
Confidence            344556678999999999999999999999764333321 2222221211222 22  579999999955321       


Q ss_pred             h---ccccccc--CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCC--CeEEEEEeCCCCCC
Q 028884           98 A---LAPLYYR--GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPD--IVMALVGNKADLHE  153 (202)
Q Consensus        98 ~---~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~p~ivv~nK~D~~~  153 (202)
                      .   ....++.  ..|++|+|..++......+-..+++.+......+  ...|||+|+.|..+
T Consensus       188 eILk~Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       188 KILSSVKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             HHHHHHHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence            1   1111323  4799999988764322112223444443332211  23789999999765

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.

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=99.27  E-value=1.8e-10  Score=93.03  Aligned_cols=154  Identities=19%  Similarity=0.200  Sum_probs=99.0

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCC-------------------------------CCCCccccceeEEEEEEEe
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQF-------------------------------DPTSKVTVGASFLSQTIAL   77 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~   77 (202)
                      +....++++|+|+..+|||||+.+++...-                               .......++.+.....+  
T Consensus       173 ~~k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~f--  250 (603)
T KOG0458|consen  173 DPKDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWF--  250 (603)
T ss_pred             CCccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEE--
Confidence            345789999999999999999998875310                               11111222222222222  


Q ss_pred             cCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChh---HHH---HHHHHHHHHHHcCCCCCeEEEEEeCCCC
Q 028884           78 QDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD---SFN---KAQYWVKELQKHGSPDIVMALVGNKADL  151 (202)
Q Consensus        78 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~---~~~~~~~~i~~~~~~~~p~ivv~nK~D~  151 (202)
                       +.....+.++|+||+..|-.....-...+|++++|+|++...   .|+   +.++....++...  -..++|++||+|.
T Consensus       251 -es~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~Lg--i~qlivaiNKmD~  327 (603)
T KOG0458|consen  251 -ESKSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSLG--ISQLIVAINKMDL  327 (603)
T ss_pred             -ecCceeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHcC--cceEEEEeecccc
Confidence             233478999999998888766666677799999999998652   222   2344545555554  3348889999998


Q ss_pred             CCCCCCChHHH----HHHH-HHc-----CCeEEEeccCCCCCHHHH
Q 028884          152 HEKREVPAQDG----IEYA-EKN-----GMFFIETSAKTADNINQL  187 (202)
Q Consensus       152 ~~~~~~~~~~~----~~~~-~~~-----~~~~~~~s~~~~~~i~~~  187 (202)
                      ..=.+...+++    ..+. +..     .+.+++||...|.|+...
T Consensus       328 V~Wsq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  328 VSWSQDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             cCccHHHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence            75332222222    2222 223     346999999999986543

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.25  E-value=3.8e-11  Score=86.59  Aligned_cols=160  Identities=19%  Similarity=0.281  Sum_probs=99.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCC-CCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhh-----hhcccccccC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFD-PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY-----AALAPLYYRG  106 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-----~~~~~~~~~~  106 (202)
                      .-||+++|.+|+||||+-.-++.+... .....+.+.+.....+.+-++  ..+.+||++|++.+     .......+++
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~RflGn--l~LnlwDcGgqe~fmen~~~~q~d~iF~n   81 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFLGN--LVLNLWDCGGQEEFMENYLSSQEDNIFRN   81 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhhhh--heeehhccCCcHHHHHHHHhhcchhhhee
Confidence            468999999999999987666543321 222334444444444333222  57899999998843     3455667889


Q ss_pred             ccEEEEEEeCCChhHHHHH---HHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChH------HHHHHHHHcCCeEEEec
Q 028884          107 AAVAVVVYDITSPDSFNKA---QYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQ------DGIEYAEKNGMFFIETS  177 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~~~~---~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~------~~~~~~~~~~~~~~~~s  177 (202)
                      .+++|++||++..+-..++   ++-++.+.+. .|...+...++|.|+.........      ....+..-+.+.++.+|
T Consensus        82 V~vli~vFDves~e~~~D~~~yqk~Le~ll~~-SP~AkiF~l~hKmDLv~~d~r~~if~~r~~~l~~~s~~~~~~~f~Ts  160 (295)
T KOG3886|consen   82 VQVLIYVFDVESREMEKDFHYYQKCLEALLQN-SPEAKIFCLLHKMDLVQEDARELIFQRRKEDLRRLSRPLECKCFPTS  160 (295)
T ss_pred             heeeeeeeeccchhhhhhHHHHHHHHHHHHhc-CCcceEEEEEeechhcccchHHHHHHHHHHHHHHhcccccccccccc
Confidence            9999999999976533333   4444555554 677889999999999765332221      12222223445677777


Q ss_pred             cCCCCCHHHHHHHHHHHcC
Q 028884          178 AKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       178 ~~~~~~i~~~~~~l~~~i~  196 (202)
                      ..+ +.+-.++..++..+.
T Consensus       161 iwD-etl~KAWS~iv~~li  178 (295)
T KOG3886|consen  161 IWD-ETLYKAWSSIVYNLI  178 (295)
T ss_pred             hhh-HHHHHHHHHHHHhhC
Confidence            666 444444555544433

>smart00053 DYNc Dynamin, GTPase

Probab=99.24  E-value=1.4e-10  Score=86.28  Aligned_cols=69  Identities=14%  Similarity=0.126  Sum_probs=44.9

Q ss_pred             EEEEEEeCCChhh-------------hhhcccccccC-ccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeC
Q 028884           83 VKFEIWDTAGQER-------------YAALAPLYYRG-AAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNK  148 (202)
Q Consensus        83 ~~~~i~D~~G~~~-------------~~~~~~~~~~~-~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK  148 (202)
                      ..+.++|+||...             ...+...|++. .+++++|+|++....-....+....+.   ..+.|+++|+||
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld---~~~~rti~ViTK  201 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVD---PQGERTIGVITK  201 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHH---HcCCcEEEEEEC
Confidence            4789999999631             23455667774 468999999876422222223333333   336789999999


Q ss_pred             CCCCCC
Q 028884          149 ADLHEK  154 (202)
Q Consensus       149 ~D~~~~  154 (202)
                      .|..++
T Consensus       202 ~D~~~~  207 (240)
T smart00053      202 LDLMDE  207 (240)
T ss_pred             CCCCCc
Confidence            998653

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.24  E-value=4.4e-10  Score=85.77  Aligned_cols=140  Identities=17%  Similarity=0.222  Sum_probs=71.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC--------ccccceeEEEEEEEe-cCCcEEEEEEEeCCChh--------
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS--------KVTVGASFLSQTIAL-QDSTTVKFEIWDTAGQE--------   94 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~--------~~~~~~~~~~~~~~~-~~~~~~~~~i~D~~G~~--------   94 (202)
                      -.++|+|+|..|+|||||||.|++.......        ....+.........+ .++..+.+.++||||..        
T Consensus         3 ~~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~~~   82 (281)
T PF00735_consen    3 FNFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNSDC   82 (281)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHCHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccchhh
Confidence            3689999999999999999999986543332        011122222222222 35566899999999911        


Q ss_pred             ----------hhhhc-------c--cccccCccEEEEEEeCCChh-HHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884           95 ----------RYAAL-------A--PLYYRGAAVAVVVYDITSPD-SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus        95 ----------~~~~~-------~--~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                                .|...       .  ...=...|++||+++++... .... -..++.+    ...+++|.|+.|+|....
T Consensus        83 ~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~D-i~~mk~L----s~~vNvIPvIaKaD~lt~  157 (281)
T PF00735_consen   83 WEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLD-IEFMKRL----SKRVNVIPVIAKADTLTP  157 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHH-HHHHHHH----TTTSEEEEEESTGGGS-H
T ss_pred             hHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHH-HHHHHHh----cccccEEeEEecccccCH
Confidence                      11100       0  11112468999999987531 1122 2233444    345789999999997543


Q ss_pred             CCC--ChHHHHHHHHHcCCeEEEe
Q 028884          155 REV--PAQDGIEYAEKNGMFFIET  176 (202)
Q Consensus       155 ~~~--~~~~~~~~~~~~~~~~~~~  176 (202)
                      .+.  ....+.......++.++..
T Consensus       158 ~el~~~k~~i~~~l~~~~I~~f~f  181 (281)
T PF00735_consen  158 EELQAFKQRIREDLEENNIKIFDF  181 (281)
T ss_dssp             HHHHHHHHHHHHHHHHTT--S---
T ss_pred             HHHHHHHHHHHHHHHHcCceeecc
Confidence            221  1122333334456665553

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.

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=99.23  E-value=7.5e-11  Score=89.11  Aligned_cols=152  Identities=20%  Similarity=0.242  Sum_probs=108.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChh---------hhhhcccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE---------RYAALAPL  102 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~  102 (202)
                      ...-|.|+|=+++||||||+.|.+-...+...-..+.+.+......+.+.  .+.+.||.|.-         .|++..+.
T Consensus       177 s~pviavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~Lpsg~--~vlltDTvGFisdLP~~LvaAF~ATLee  254 (410)
T KOG0410|consen  177 SSPVIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPTLHSAHLPSGN--FVLLTDTVGFISDLPIQLVAAFQATLEE  254 (410)
T ss_pred             CCceEEEEeecCccHHHHHHHHHhhhcCccchhheeccchhhhccCCCCc--EEEEeechhhhhhCcHHHHHHHHHHHHH
Confidence            34678999999999999999999766656655556667767777777776  78889999943         24444443


Q ss_pred             cccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCe----EEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEecc
Q 028884          103 YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV----MALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSA  178 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p----~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~  178 (202)
                       +..+|+++-|.|++.|.--++....+..+.....+..|    ++=|=||.|..+.....+        ..+  .+.+|+
T Consensus       255 -VaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~~e~E--------~n~--~v~isa  323 (410)
T KOG0410|consen  255 -VAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDEVEEE--------KNL--DVGISA  323 (410)
T ss_pred             -HhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccccCccc--------cCC--cccccc
Confidence             55699999999999997555666666777766544444    344568888654322211        111  578999


Q ss_pred             CCCCCHHHHHHHHHHHcC
Q 028884          179 KTADNINQLFEEIAKRLP  196 (202)
Q Consensus       179 ~~~~~i~~~~~~l~~~i~  196 (202)
                      ++|.|++++++.+-..+.
T Consensus       324 ltgdgl~el~~a~~~kv~  341 (410)
T KOG0410|consen  324 LTGDGLEELLKAEETKVA  341 (410)
T ss_pred             ccCccHHHHHHHHHHHhh
Confidence            999999999988766554

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=99.21  E-value=2.2e-09  Score=78.69  Aligned_cols=154  Identities=18%  Similarity=0.172  Sum_probs=102.2

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh-------hhhccccccc
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER-------YAALAPLYYR  105 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~  105 (202)
                      ..+|+++|-|.+|||||+..+......... ...++-.+.+-+...++  ..+++.|.||.-+       .........+
T Consensus        62 daRValIGfPSVGKStlLs~iT~T~SeaA~-yeFTTLtcIpGvi~y~g--a~IQllDLPGIieGAsqgkGRGRQviavAr  138 (364)
T KOG1486|consen   62 DARVALIGFPSVGKSTLLSKITSTHSEAAS-YEFTTLTCIPGVIHYNG--ANIQLLDLPGIIEGASQGKGRGRQVIAVAR  138 (364)
T ss_pred             CeEEEEecCCCccHHHHHHHhhcchhhhhc-eeeeEEEeecceEEecC--ceEEEecCcccccccccCCCCCceEEEEee
Confidence            479999999999999999999875432222 22333333333322233  4799999999432       1345566778


Q ss_pred             CccEEEEEEeCCChhHHH-HHHHHHHHHHHcCCC----------------------------------------------
Q 028884          106 GAAVAVVVYDITSPDSFN-KAQYWVKELQKHGSP----------------------------------------------  138 (202)
Q Consensus       106 ~~d~~i~v~d~~~~~s~~-~~~~~~~~i~~~~~~----------------------------------------------  138 (202)
                      .+|.++.|.|++..+... -+.+.++.+--+-++                                              
T Consensus       139 taDlilMvLDatk~e~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~~lT~~~ek~i~~ILheykI~Naevl  218 (364)
T KOG1486|consen  139 TADLILMVLDATKSEDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLTHCDEKLIYTILHEYKIHNAEVL  218 (364)
T ss_pred             cccEEEEEecCCcchhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeeccccccHHHHHHHHHHHeeccceEE
Confidence            899999999999875443 334444433111111                                              


Q ss_pred             -------------------CCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          139 -------------------DIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       139 -------------------~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                                         -.+|+.|-||+|     +++.++...+++..+.  +.+|+.-..|++.+++.+++.+.
T Consensus       219 ~ReD~t~DdfIDvi~gnr~Y~~ClYvYnKID-----~vs~eevdrlAr~Pns--vViSC~m~lnld~lle~iWe~l~  288 (364)
T KOG1486|consen  219 FREDCTVDDFIDVIEGNRVYIKCLYVYNKID-----QVSIEEVDRLARQPNS--VVISCNMKLNLDRLLERIWEELN  288 (364)
T ss_pred             EecCCChHHHHHHHhccceEEEEEEEeeccc-----eecHHHHHHHhcCCCc--EEEEeccccCHHHHHHHHHHHhc
Confidence                               256677777777     4556677777766664  56777888899999999998764

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.21  E-value=1.8e-10  Score=90.19  Aligned_cols=113  Identities=15%  Similarity=0.147  Sum_probs=82.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC--C--------------------CCCCCccccceeEEEEEEEecCCcEEEEEEEeC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG--Q--------------------FDPTSKVTVGASFLSQTIALQDSTTVKFEIWDT   90 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~--~--------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~   90 (202)
                      .-..+|+-+|.+|||||-++|+--  .                    .....+..++...+...+.+.+   ..+.+.||
T Consensus        12 RRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~~---~~iNLLDT   88 (528)
T COG4108          12 RRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYAD---CLVNLLDT   88 (528)
T ss_pred             hcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccCC---eEEeccCC
Confidence            346789999999999999988631  0                    0111223455666666666654   67999999


Q ss_pred             CChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 028884           91 AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH  152 (202)
Q Consensus        91 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~  152 (202)
                      ||++.|..-+..-+..+|.++.|+|+..+-.. +..+.++.-+   .+++|++=++||.|..
T Consensus        89 PGHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~-qT~KLfeVcr---lR~iPI~TFiNKlDR~  146 (528)
T COG4108          89 PGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEP-QTLKLFEVCR---LRDIPIFTFINKLDRE  146 (528)
T ss_pred             CCccccchhHHHHHHhhheeeEEEecccCccH-HHHHHHHHHh---hcCCceEEEeeccccc
Confidence            99999988777778889999999999987432 2233434333   4589999999999964

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.20  E-value=1.4e-10  Score=97.67  Aligned_cols=119  Identities=15%  Similarity=0.100  Sum_probs=84.6

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCC--------C------CC----CccccceeEEEEEEEecCCcEEEEEEEeCC
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQF--------D------PT----SKVTVGASFLSQTIALQDSTTVKFEIWDTA   91 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~--------~------~~----~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   91 (202)
                      ..+.-+|.++|+..+|||||.++++...-        .      ..    ....++.........+.+  .+.+.++|||
T Consensus         7 ~~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~--~~~iNlIDTP   84 (697)
T COG0480           7 LERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKG--DYRINLIDTP   84 (697)
T ss_pred             cccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcC--ceEEEEeCCC
Confidence            45678999999999999999999986311        0      00    111223333233333332  3789999999


Q ss_pred             ChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884           92 GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus        92 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                      |+..|.......++.+|++++|+|+..+-..+.-.-|..    ....++|.++++||+|....
T Consensus        85 GHVDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rq----a~~~~vp~i~fiNKmDR~~a  143 (697)
T COG0480          85 GHVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQ----ADKYGVPRILFVNKMDRLGA  143 (697)
T ss_pred             CccccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHH----HhhcCCCeEEEEECcccccc
Confidence            999999999999999999999999998744433333422    23447999999999997654

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

Probab=99.20  E-value=3.7e-11  Score=84.80  Aligned_cols=151  Identities=16%  Similarity=0.145  Sum_probs=89.8

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEE---------------EEEEecCCc----------------
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLS---------------QTIALQDST----------------   81 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~----------------   81 (202)
                      .++|.|.|++|||||+|+.+++.........--++.+...               ..+...++.                
T Consensus        13 ~~~i~v~Gp~GSGKTaLie~~~~~L~~~~~~aVI~~Di~t~~Da~~l~~~~g~~i~~v~TG~~CH~da~m~~~ai~~l~~   92 (202)
T COG0378          13 MLRIGVGGPPGSGKTALIEKTLRALKDEYKIAVITGDIYTKEDADRLRKLPGEPIIGVETGKGCHLDASMNLEAIEELVL   92 (202)
T ss_pred             eEEEEecCCCCcCHHHHHHHHHHHHHhhCCeEEEeceeechhhHHHHHhCCCCeeEEeccCCccCCcHHHHHHHHHHHhh
Confidence            5899999999999999999887642211100000001100               001111000                


Q ss_pred             ---EEEEEEEeCCChhhhhhcccccccCcc-EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC
Q 028884           82 ---TVKFEIWDTAGQERYAALAPLYYRGAA-VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV  157 (202)
Q Consensus        82 ---~~~~~i~D~~G~~~~~~~~~~~~~~~d-~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~  157 (202)
                         ...+.|++..|+  ......  ..-.| .-|+|+|...++-..  ++-+..+.      ..=++|+||.|+......
T Consensus        93 ~~~~~Dll~iEs~GN--L~~~~s--p~L~d~~~v~VidvteGe~~P--~K~gP~i~------~aDllVInK~DLa~~v~~  160 (202)
T COG0378          93 DFPDLDLLFIESVGN--LVCPFS--PDLGDHLRVVVIDVTEGEDIP--RKGGPGIF------KADLLVINKTDLAPYVGA  160 (202)
T ss_pred             cCCcCCEEEEecCcc--eecccC--cchhhceEEEEEECCCCCCCc--ccCCCcee------EeeEEEEehHHhHHHhCc
Confidence               135677777772  111111  22234 788999998763211  11011111      125888999999887666


Q ss_pred             ChHHHHHHHHH--cCCeEEEeccCCCCCHHHHHHHHHHHc
Q 028884          158 PAQDGIEYAEK--NGMFFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       158 ~~~~~~~~~~~--~~~~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      ..+...+-+++  ...+++++|.++|+|++++++++....
T Consensus       161 dlevm~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~~~~  200 (202)
T COG0378         161 DLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEPQA  200 (202)
T ss_pred             cHHHHHHHHHHhCCCCCEEEEeCCCCcCHHHHHHHHHhhc
Confidence            55666555554  467899999999999999999988764

>cd01900 YchF YchF subfamily

Probab=99.20  E-value=3.4e-10  Score=85.80  Aligned_cols=82  Identities=15%  Similarity=0.102  Sum_probs=53.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCc--------------EEEEEEEeCCChhh------
Q 028884           36 LVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDST--------------TVKFEIWDTAGQER------   95 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~i~D~~G~~~------   95 (202)
                      |.++|.|++|||||+|+|++........+..+.+.....+.+.+..              ...+.++|+||...      
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~   80 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGE   80 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhh
Confidence            5799999999999999999977643333333334433334433321              13589999999432      


Q ss_pred             -hhhcccccccCccEEEEEEeCC
Q 028884           96 -YAALAPLYYRGAAVAVVVYDIT  117 (202)
Q Consensus        96 -~~~~~~~~~~~~d~~i~v~d~~  117 (202)
                       ........++.+|++++|+|..
T Consensus        81 glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          81 GLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCc
Confidence             1112233467799999999874

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.20  E-value=2.1e-10  Score=88.66  Aligned_cols=102  Identities=24%  Similarity=0.083  Sum_probs=63.4

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHH
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDG  162 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  162 (202)
                      +.+.|+||+|.....   ......+|.++++.+....+   ++......+     .++|.++|+||+|+...........
T Consensus       127 ~D~viidT~G~~~~e---~~i~~~aD~i~vv~~~~~~~---el~~~~~~l-----~~~~~ivv~NK~Dl~~~~~~~~~~~  195 (300)
T TIGR00750       127 YDVIIVETVGVGQSE---VDIANMADTFVVVTIPGTGD---DLQGIKAGL-----MEIADIYVVNKADGEGATNVTIARL  195 (300)
T ss_pred             CCEEEEeCCCCchhh---hHHHHhhceEEEEecCCccH---HHHHHHHHH-----hhhccEEEEEcccccchhHHHHHHH
Confidence            688999999954222   12456678888886544433   333332323     2466799999999865432110000


Q ss_pred             ------HHHHH---HcCCeEEEeccCCCCCHHHHHHHHHHHc
Q 028884          163 ------IEYAE---KNGMFFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       163 ------~~~~~---~~~~~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                            ..+..   .+..+++.+|++++.|+++++++|.+.+
T Consensus       196 ~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~  237 (300)
T TIGR00750       196 MLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHK  237 (300)
T ss_pred             HHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHH
Confidence                  11111   1224589999999999999999998864

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.

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.18  E-value=1.4e-11  Score=92.30  Aligned_cols=170  Identities=15%  Similarity=0.150  Sum_probs=112.5

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCC---CCCCCccccceeEEEEEEEec--C-----------------------
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQ---FDPTSKVTVGASFLSQTIALQ--D-----------------------   79 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~---~~~~~~~~~~~~~~~~~~~~~--~-----------------------   79 (202)
                      .+++..++|.-+|+...||||+++.+.+-.   |.......++....+.+.++.  +                       
T Consensus        33 isRQATiNIGTIGHVAHGKSTvVkAiSGv~TvrFK~ELERNITIKLGYANAKIYkc~~~kCprP~cy~s~gS~k~d~~~c  112 (466)
T KOG0466|consen   33 ISRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKCDDPKCPRPGCYRSFGSSKEDRPPC  112 (466)
T ss_pred             hhheeeeeecceeccccCcceeeeeeccceEEEehhhhhcceeEEeccccceEEecCCCCCCCcchhhccCCCCCCCCCc
Confidence            456778999999999999999998887631   111111112221111111110  0                       


Q ss_pred             ----Cc-----EEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCC
Q 028884           80 ----ST-----TVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKAD  150 (202)
Q Consensus        80 ----~~-----~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D  150 (202)
                          ..     ...+.|+|+||++-.-+....-..-.|++++++..+.+-...+..+.+..+..+.  -+.++++.||.|
T Consensus       113 ~~~g~~~~~klvRHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaaveiM~--LkhiiilQNKiD  190 (466)
T KOG0466|consen  113 DRPGCEGKMKLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAAVEIMK--LKHIIILQNKID  190 (466)
T ss_pred             ccCCCCCceEEEEEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHHHHHhh--hceEEEEechhh
Confidence                00     1467899999998766555444555699999999986543445555555555442  234889999999


Q ss_pred             CCCCCCC--ChHHHHHHHHH---cCCeEEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          151 LHEKREV--PAQDGIEYAEK---NGMFFIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       151 ~~~~~~~--~~~~~~~~~~~---~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      +.++.+.  ..++++.|.+.   .+.+++++||.-++|++-+.++|+..+..+.
T Consensus       191 li~e~~A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPvPv  244 (466)
T KOG0466|consen  191 LIKESQALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPVPV  244 (466)
T ss_pred             hhhHHHHHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCCCc
Confidence            9875432  23344445443   3678999999999999999999999998763

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=99.18  E-value=4.2e-10  Score=84.13  Aligned_cols=166  Identities=16%  Similarity=0.218  Sum_probs=105.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCC----------CC----CCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQ----------FD----PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY   96 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~----------~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   96 (202)
                      .+.+||..+|+...|||||...+..-.          +.    .......+..+....+.+.-.. ..+..+|+||+..|
T Consensus        10 kphVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet~~-rhyahVDcPGHaDY   88 (394)
T COG0050          10 KPHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETAN-RHYAHVDCPGHADY   88 (394)
T ss_pred             CCeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEecCC-ceEEeccCCChHHH
Confidence            568999999999999999987765421          11    1111222333333333333233 67899999999998


Q ss_pred             hhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCCCCC---CChHHHHHHHHHcCC-
Q 028884           97 AALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEKRE---VPAQDGIEYAEKNGM-  171 (202)
Q Consensus        97 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~~~~---~~~~~~~~~~~~~~~-  171 (202)
                      -.....-....|+.|+|+++.+..- .+.++.+...++.   +.| +++++||+|+.+..+   .-..+.+.+..+++. 
T Consensus        89 vKNMItgAaqmDgAILVVsA~dGpm-PqTrEHiLlarqv---Gvp~ivvflnK~Dmvdd~ellelVemEvreLLs~y~f~  164 (394)
T COG0050          89 VKNMITGAAQMDGAILVVAATDGPM-PQTREHILLARQV---GVPYIVVFLNKVDMVDDEELLELVEMEVRELLSEYGFP  164 (394)
T ss_pred             HHHHhhhHHhcCccEEEEEcCCCCC-Ccchhhhhhhhhc---CCcEEEEEEecccccCcHHHHHHHHHHHHHHHHHcCCC
Confidence            7766666667899999999998642 3334444444444   454 667789999987433   223445566666654 


Q ss_pred             ----eEEEeccCCC--------CCHHHHHHHHHHHcCCCCCC
Q 028884          172 ----FFIETSAKTA--------DNINQLFEEIAKRLPRPSPS  201 (202)
Q Consensus       172 ----~~~~~s~~~~--------~~i~~~~~~l~~~i~~~~~~  201 (202)
                          |++.-|+..-        ..+.++++++-+.+..+..+
T Consensus       165 gd~~Pii~gSal~ale~~~~~~~~i~eLm~avd~yip~Per~  206 (394)
T COG0050         165 GDDTPIIRGSALKALEGDAKWEAKIEELMDAVDSYIPTPERD  206 (394)
T ss_pred             CCCcceeechhhhhhcCCcchHHHHHHHHHHHHhcCCCCCCc
Confidence                3555453322        24788888888888877543

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.14  E-value=8.1e-10  Score=86.80  Aligned_cols=155  Identities=19%  Similarity=0.108  Sum_probs=105.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCC---CCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFD---PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      .|...|+-..|||||+..+.+....   .......+.+.........+   ..+.|+|.||++++-......+...|.++
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d---~~~~fIDvpgh~~~i~~miag~~~~d~al   78 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLED---GVMGFIDVPGHPDFISNLLAGLGGIDYAL   78 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccCCC---CceEEeeCCCcHHHHHHHHhhhcCCceEE
Confidence            4778899999999999999986533   22233344444444443333   47999999999988777777788899999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH---HcCCeEEEeccCCCCCHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAE---KNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~---~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      +|+|.+++-.. +..+.+..+....  ....++|+||+|..++... .+...+...   ....+++.+|+++|+|+.++.
T Consensus        79 LvV~~deGl~~-qtgEhL~iLdllg--i~~giivltk~D~~d~~r~-e~~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk  154 (447)
T COG3276          79 LVVAADEGLMA-QTGEHLLILDLLG--IKNGIIVLTKADRVDEARI-EQKIKQILADLSLANAKIFKTSAKTGRGIEELK  154 (447)
T ss_pred             EEEeCccCcch-hhHHHHHHHHhcC--CCceEEEEeccccccHHHH-HHHHHHHHhhcccccccccccccccCCCHHHHH
Confidence            99999876322 2233334444332  1226899999998764321 222222222   234568999999999999999


Q ss_pred             HHHHHHcC
Q 028884          189 EEIAKRLP  196 (202)
Q Consensus       189 ~~l~~~i~  196 (202)
                      +.|.+...
T Consensus       155 ~~l~~L~~  162 (447)
T COG3276         155 NELIDLLE  162 (447)
T ss_pred             HHHHHhhh
Confidence            99998874

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=99.11  E-value=1.1e-09  Score=82.23  Aligned_cols=155  Identities=20%  Similarity=0.193  Sum_probs=93.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCC-----------CCCCCccccce---------------eEEEEEEEec------
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQ-----------FDPTSKVTVGA---------------SFLSQTIALQ------   78 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~-----------~~~~~~~~~~~---------------~~~~~~~~~~------   78 (202)
                      .+...|.|.|.||+|||||+..|....           .++....+.+.               ..+.......      
T Consensus        49 G~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRiRM~~~~~~~~vFiRs~~srG~lGGl  128 (323)
T COG1703          49 GNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIRMQRLAVDPGVFIRSSPSRGTLGGL  128 (323)
T ss_pred             CCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHhhHHhhccCCCeEEeecCCCccchhh
Confidence            456789999999999999999886531           12222211110               0001110000      


Q ss_pred             -----------CCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEe
Q 028884           79 -----------DSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGN  147 (202)
Q Consensus        79 -----------~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~n  147 (202)
                                 +...+.+.|++|.|--.-.   ....+.+|.+++|.-..-++..+.++.-+..+-        =++|+|
T Consensus       129 S~at~~~i~~ldAaG~DvIIVETVGvGQse---v~I~~~aDt~~~v~~pg~GD~~Q~iK~GimEia--------Di~vIN  197 (323)
T COG1703         129 SRATREAIKLLDAAGYDVIIVETVGVGQSE---VDIANMADTFLVVMIPGAGDDLQGIKAGIMEIA--------DIIVIN  197 (323)
T ss_pred             hHHHHHHHHHHHhcCCCEEEEEecCCCcch---hHHhhhcceEEEEecCCCCcHHHHHHhhhhhhh--------heeeEe
Confidence                       0002578999999853222   223455899999988877776776665444442        378899


Q ss_pred             CCCCCCCCC--CChHHHHHHHH------HcCCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          148 KADLHEKRE--VPAQDGIEYAE------KNGMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       148 K~D~~~~~~--~~~~~~~~~~~------~~~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      |.|......  .....+..+..      .+..+++.+|+.+|+|++++++.+.++..
T Consensus       198 KaD~~~A~~a~r~l~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~  254 (323)
T COG1703         198 KADRKGAEKAARELRSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRK  254 (323)
T ss_pred             ccChhhHHHHHHHHHHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHH
Confidence            999433211  11111111111      13457999999999999999999988754

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=99.05  E-value=1e-10  Score=86.48  Aligned_cols=152  Identities=22%  Similarity=0.187  Sum_probs=84.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCC-----------CCCCccc---------------cceeEEEEEEEecCCc----
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQF-----------DPTSKVT---------------VGASFLSQTIALQDST----   81 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~-----------~~~~~~~---------------~~~~~~~~~~~~~~~~----   81 (202)
                      +.+.|.|.|+||+|||||++.|.....           ++....+               .....+.......+.-    
T Consensus        28 ~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGDRiRM~~~~~d~~vfIRS~atRG~lGGls  107 (266)
T PF03308_consen   28 RAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGDRIRMQELSRDPGVFIRSMATRGSLGGLS  107 (266)
T ss_dssp             -SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--GGGCHHHHTSTTEEEEEE---SSHHHHH
T ss_pred             CceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcccccHHHhcCcCCCCCEEEeecCcCCCCCCcc
Confidence            468999999999999999998865211           1111110               0111112221111100    


Q ss_pred             -------------EEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeC
Q 028884           82 -------------TVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNK  148 (202)
Q Consensus        82 -------------~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK  148 (202)
                                   .+.+.|++|.|--.-.   ......+|.+++|.-+.-.+..+.++.-+.++.        =++|+||
T Consensus       108 ~~t~~~v~ll~aaG~D~IiiETVGvGQsE---~~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimEia--------Di~vVNK  176 (266)
T PF03308_consen  108 RATRDAVRLLDAAGFDVIIIETVGVGQSE---VDIADMADTVVLVLVPGLGDEIQAIKAGIMEIA--------DIFVVNK  176 (266)
T ss_dssp             HHHHHHHHHHHHTT-SEEEEEEESSSTHH---HHHHTTSSEEEEEEESSTCCCCCTB-TTHHHH---------SEEEEE-
T ss_pred             HhHHHHHHHHHHcCCCEEEEeCCCCCccH---HHHHHhcCeEEEEecCCCccHHHHHhhhhhhhc--------cEEEEeC
Confidence                         1678999998742222   112455899999999887766665544333332        3788999


Q ss_pred             CCCCCCCCCChHHHHHHHHH-------cCCeEEEeccCCCCCHHHHHHHHHHHc
Q 028884          149 ADLHEKREVPAQDGIEYAEK-------NGMFFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       149 ~D~~~~~~~~~~~~~~~~~~-------~~~~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      .|...... ...+.......       +..+++.+||.++.|++++++.|.++.
T Consensus       177 aD~~gA~~-~~~~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~  229 (266)
T PF03308_consen  177 ADRPGADR-TVRDLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHR  229 (266)
T ss_dssp             -SHHHHHH-HHHHHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             CChHHHHH-HHHHHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            99432211 11111111111       235799999999999999999988753

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.

>PRK12289 GTPase RsgA; Reviewed

Probab=99.05  E-value=1.8e-09  Score=84.82  Aligned_cols=93  Identities=19%  Similarity=0.214  Sum_probs=69.3

Q ss_pred             hhcccccccCccEEEEEEeCCChh-HHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEE
Q 028884           97 AALAPLYYRGAAVAVVVYDITSPD-SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIE  175 (202)
Q Consensus        97 ~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  175 (202)
                      ..+.+..+.++|.+++|+|+.++. ....+..|+..+.   ..++|+++|+||+|+.....  ...........+..++.
T Consensus        80 ~~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~---~~~ip~ILVlNK~DLv~~~~--~~~~~~~~~~~g~~v~~  154 (352)
T PRK12289         80 TELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAE---STGLEIVLCLNKADLVSPTE--QQQWQDRLQQWGYQPLF  154 (352)
T ss_pred             cceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHH---HCCCCEEEEEEchhcCChHH--HHHHHHHHHhcCCeEEE
Confidence            445566788999999999998774 4556677776553   34789999999999864322  12233344567888999


Q ss_pred             eccCCCCCHHHHHHHHHHH
Q 028884          176 TSAKTADNINQLFEEIAKR  194 (202)
Q Consensus       176 ~s~~~~~~i~~~~~~l~~~  194 (202)
                      +|++++.|++++++.|...
T Consensus       155 iSA~tg~GI~eL~~~L~~k  173 (352)
T PRK12289        155 ISVETGIGLEALLEQLRNK  173 (352)
T ss_pred             EEcCCCCCHHHHhhhhccc
Confidence            9999999999999988653

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=99.04  E-value=3.8e-09  Score=80.22  Aligned_cols=55  Identities=18%  Similarity=0.197  Sum_probs=40.5

Q ss_pred             CeEEEEEeCCCCCCCCCCChHHHHHHHHH--cCCeEEEeccCCCCCHHHHHHHHHHH
Q 028884          140 IVMALVGNKADLHEKREVPAQDGIEYAEK--NGMFFIETSAKTADNINQLFEEIAKR  194 (202)
Q Consensus       140 ~p~ivv~nK~D~~~~~~~~~~~~~~~~~~--~~~~~~~~s~~~~~~i~~~~~~l~~~  194 (202)
                      .+-++|+||+|+.+......+...+..+.  ...+++.+|+++|+|++++++||.+.
T Consensus       231 ~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        231 AASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             cCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            44689999999975433333344444433  35779999999999999999999874

>cd01855 YqeH YqeH

Probab=99.02  E-value=3e-09  Score=76.96  Aligned_cols=96  Identities=24%  Similarity=0.170  Sum_probs=66.5

Q ss_pred             hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHH-----HH
Q 028884           94 ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYA-----EK  168 (202)
Q Consensus        94 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~  168 (202)
                      ..+..++..+++.+|++++|+|++++..     .|...+... ..++|+++|+||+|+..... .......+.     ..
T Consensus        22 ~~~~~~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~-~~~~~~ilV~NK~Dl~~~~~-~~~~~~~~~~~~~~~~   94 (190)
T cd01855          22 DFILNLLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLF-GGNNPVILVGNKIDLLPKDK-NLVRIKNWLRAKAAAG   94 (190)
T ss_pred             HHHHHHHHhcccCCcEEEEEEECccCCC-----ccchhHHHh-cCCCcEEEEEEchhcCCCCC-CHHHHHHHHHHHHHhh
Confidence            3357788889999999999999987631     111222222 24689999999999865322 222233332     22


Q ss_pred             cCC---eEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          169 NGM---FFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       169 ~~~---~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      .+.   .++.+|++++.|++++++.|.+.+.
T Consensus        95 ~~~~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          95 LGLKPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             cCCCcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence            332   5899999999999999999998764

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.

>cd01859 MJ1464 MJ1464

Probab=99.01  E-value=6.5e-10  Score=77.87  Aligned_cols=96  Identities=20%  Similarity=0.142  Sum_probs=65.5

Q ss_pred             hhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEE
Q 028884           96 YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIE  175 (202)
Q Consensus        96 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  175 (202)
                      ++.++++.++.+|++|+|+|++++..... ..+...+.   ..++|+++|+||+|+.+...  ......+....+.+++.
T Consensus         2 ~~~~~~~i~~~aD~vl~V~D~~~~~~~~~-~~l~~~~~---~~~~p~iiv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~   75 (156)
T cd01859           2 WKRLVRRIIKESDVVLEVLDARDPELTRS-RKLERYVL---ELGKKLLIVLNKADLVPKEV--LEKWKSIKESEGIPVVY   75 (156)
T ss_pred             HHHHHHHHHhhCCEEEEEeeCCCCcccCC-HHHHHHHH---hCCCcEEEEEEhHHhCCHHH--HHHHHHHHHhCCCcEEE
Confidence            35567778888999999999987643221 12222222   23689999999999854221  11111233345667899


Q ss_pred             eccCCCCCHHHHHHHHHHHcCC
Q 028884          176 TSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       176 ~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      +|++++.|++++++.+.+.+..
T Consensus        76 iSa~~~~gi~~L~~~l~~~~~~   97 (156)
T cd01859          76 VSAKERLGTKILRRTIKELAKI   97 (156)
T ss_pred             EEccccccHHHHHHHHHHHHhh
Confidence            9999999999999999887653

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.

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=99.00  E-value=2.6e-09  Score=87.70  Aligned_cols=117  Identities=18%  Similarity=0.169  Sum_probs=81.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc-----------------cccceeEEEEEE--EecCCcEEEEEEEeCC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK-----------------VTVGASFLSQTI--ALQDSTTVKFEIWDTA   91 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-----------------~~~~~~~~~~~~--~~~~~~~~~~~i~D~~   91 (202)
                      ....++.++|+-++|||+|+.-|..+..+....                 ...+.......+  ...++..+.+++.|||
T Consensus       126 ~~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nilDTP  205 (971)
T KOG0468|consen  126 ERIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNILDTP  205 (971)
T ss_pred             ceEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeeecCC
Confidence            357899999999999999999887653211110                 111111111122  2234556889999999


Q ss_pred             ChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCC
Q 028884           92 GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL  151 (202)
Q Consensus        92 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~  151 (202)
                      |+..|.......++.+|++++++|+..+-.+..-+-....+    ....|+++|+||.|.
T Consensus       206 GHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlntEr~ikhai----q~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  206 GHVNFSDETTASLRLSDGVVLVVDVAEGVMLNTERIIKHAI----QNRLPIVVVINKVDR  261 (971)
T ss_pred             CcccchHHHHHHhhhcceEEEEEEcccCceeeHHHHHHHHH----hccCcEEEEEehhHH
Confidence            99999888888899999999999999886554322222223    346889999999996

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.99  E-value=2e-08  Score=78.01  Aligned_cols=148  Identities=17%  Similarity=0.237  Sum_probs=86.3

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC-------ccccceeEEEEEEEe-cCCcEEEEEEEeCCChh-----
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS-------KVTVGASFLSQTIAL-QDSTTVKFEIWDTAGQE-----   94 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-------~~~~~~~~~~~~~~~-~~~~~~~~~i~D~~G~~-----   94 (202)
                      .++.-.++++++|..|.|||||||.|+...+....       .+..+..+......+ .++-.+++.++||||..     
T Consensus        16 ~KkG~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdn   95 (366)
T KOG2655|consen   16 VKKGFDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDN   95 (366)
T ss_pred             HhcCCceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccc
Confidence            44456799999999999999999999987543321       111122333333333 34566899999999911     


Q ss_pred             ----------------hh----hhccccccc--CccEEEEEEeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCC
Q 028884           95 ----------------RY----AALAPLYYR--GAAVAVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADL  151 (202)
Q Consensus        95 ----------------~~----~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~  151 (202)
                                      .|    ....+..+.  .+++.+|.+..+.-. +..+ ..++..+    ...+.+|.|+.|.|.
T Consensus        96 s~~w~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~ghg-L~p~Di~~Mk~l----~~~vNiIPVI~KaD~  170 (366)
T KOG2655|consen   96 SNCWRPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGHG-LKPLDIEFMKKL----SKKVNLIPVIAKADT  170 (366)
T ss_pred             cccchhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCCC-CcHhhHHHHHHH----hccccccceeecccc
Confidence                            11    111222233  467888888866431 2222 2233333    335668999999997


Q ss_pred             CCCCC--CChHHHHHHHHHcCCeEEEeccCC
Q 028884          152 HEKRE--VPAQDGIEYAEKNGMFFIETSAKT  180 (202)
Q Consensus       152 ~~~~~--~~~~~~~~~~~~~~~~~~~~s~~~  180 (202)
                      ....+  .....+.+.+...++++|......
T Consensus       171 lT~~El~~~K~~I~~~i~~~nI~vf~fp~~~  201 (366)
T KOG2655|consen  171 LTKDELNQFKKRIRQDIEEHNIKVFDFPTDE  201 (366)
T ss_pred             CCHHHHHHHHHHHHHHHHHcCcceecCCCCc
Confidence            65432  122334455556677766655444

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.97  E-value=3.7e-09  Score=81.25  Aligned_cols=88  Identities=19%  Similarity=0.177  Sum_probs=68.0

Q ss_pred             cccccCccEEEEEEeCCChh-HHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccC
Q 028884          101 PLYYRGAAVAVVVYDITSPD-SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAK  179 (202)
Q Consensus       101 ~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~  179 (202)
                      ...+.++|.+++|+|+.++. ++..+.+|+..+...   ++|+++|+||+|+.+..  .......+....+.+++.+|++
T Consensus        73 ~~i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~~---~ip~iIVlNK~DL~~~~--~~~~~~~~~~~~g~~v~~vSA~  147 (287)
T cd01854          73 QVIAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEAA---GIEPVIVLTKADLLDDE--EEELELVEALALGYPVLAVSAK  147 (287)
T ss_pred             eeEEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHHc---CCCEEEEEEHHHCCChH--HHHHHHHHHHhCCCeEEEEECC
Confidence            33478899999999999887 778888888776643   68899999999986541  1122333445577889999999


Q ss_pred             CCCCHHHHHHHHHH
Q 028884          180 TADNINQLFEEIAK  193 (202)
Q Consensus       180 ~~~~i~~~~~~l~~  193 (202)
                      ++.|+++++..|..
T Consensus       148 ~g~gi~~L~~~L~~  161 (287)
T cd01854         148 TGEGLDELREYLKG  161 (287)
T ss_pred             CCccHHHHHhhhcc
Confidence            99999999888753

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.

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=98.95  E-value=3e-08  Score=76.53  Aligned_cols=141  Identities=16%  Similarity=0.182  Sum_probs=80.8

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC----------ccccceeEEEEEEEecCCcEEEEEEEeCCChh----
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS----------KVTVGASFLSQTIALQDSTTVKFEIWDTAGQE----   94 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----   94 (202)
                      .+.-.++|+++|+.|.|||||+|+|++.......          .++....... .....++-.+.+.++||||..    
T Consensus        19 k~Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~-~~l~e~~~~~~l~vIDtpGfGD~id   97 (373)
T COG5019          19 KKGIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITK-AELEEDGFHLNLTVIDTPGFGDFID   97 (373)
T ss_pred             hcCCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeee-eeeecCCeEEEEEEeccCCcccccc
Confidence            3356899999999999999999999986332221          1222222222 223335556899999999911    


Q ss_pred             --------------hhhh-------cccc-cc--cCccEEEEEEeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCC
Q 028884           95 --------------RYAA-------LAPL-YY--RGAAVAVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKA  149 (202)
Q Consensus        95 --------------~~~~-------~~~~-~~--~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~  149 (202)
                                    .+..       ..+. -+  ..+++++|.+.++.-. +..+ -..+..+..    .+-+|.|+.|.
T Consensus        98 Ns~~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh~-l~~~DIe~Mk~ls~----~vNlIPVI~Ka  172 (373)
T COG5019          98 NSKCWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGHG-LKPLDIEAMKRLSK----RVNLIPVIAKA  172 (373)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCCC-CCHHHHHHHHHHhc----ccCeeeeeecc
Confidence                          1110       0111 11  2367888888766431 2222 223333433    35589999999


Q ss_pred             CCCCCCC--CChHHHHHHHHHcCCeEEE
Q 028884          150 DLHEKRE--VPAQDGIEYAEKNGMFFIE  175 (202)
Q Consensus       150 D~~~~~~--~~~~~~~~~~~~~~~~~~~  175 (202)
                      |.....+  .-...+++....+++++|.
T Consensus       173 D~lT~~El~~~K~~I~~~i~~~nI~vf~  200 (373)
T COG5019         173 DTLTDDELAEFKERIREDLEQYNIPVFD  200 (373)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHhCCceeC
Confidence            9765322  1223344555566777664

>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=98.94  E-value=3.3e-08  Score=79.30  Aligned_cols=113  Identities=17%  Similarity=0.250  Sum_probs=77.4

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChh----------HHHHHHHHHHHHHH-cCCCCCeEEEEEeCCCC
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD----------SFNKAQYWVKELQK-HGSPDIVMALVGNKADL  151 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~----------s~~~~~~~~~~i~~-~~~~~~p~ivv~nK~D~  151 (202)
                      ..+.++|++|+...+..|..++.+++++|||+++++.+          .+.+....++.+-. ..-.+.|++|++||.|+
T Consensus       236 ~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~D~  315 (389)
T PF00503_consen  236 RKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKIDL  315 (389)
T ss_dssp             EEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-HHH
T ss_pred             cccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecHHH
Confidence            57899999999999999999999999999999987532          13333333333322 22347899999999996


Q ss_pred             CCC-----C-------------CCChHHHHHHHHHc--------C--C--eEEEeccCCCCCHHHHHHHHHHHc
Q 028884          152 HEK-----R-------------EVPAQDGIEYAEKN--------G--M--FFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       152 ~~~-----~-------------~~~~~~~~~~~~~~--------~--~--~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      ..+     .             ....+.+..+....        .  .  .+..++|.+..++..+|+.+.+.|
T Consensus       316 f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~h~t~a~d~~~~~~v~~~v~~~i  389 (389)
T PF00503_consen  316 FEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPSRRIYVHFTCATDTENIRKVFNAVKDII  389 (389)
T ss_dssp             HHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTCS-EEEEEESTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCCCCcceEEEEeeecccHHHHHHHHHhcCcC
Confidence            321     0             12334455444431        1  2  356789999999999999988754

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 ....

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=98.93  E-value=1.7e-08  Score=73.53  Aligned_cols=157  Identities=18%  Similarity=0.234  Sum_probs=86.1

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC-----c--cccceeEEEEE-EEecCCcEEEEEEEeCCCh-------
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS-----K--VTVGASFLSQT-IALQDSTTVKFEIWDTAGQ-------   93 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-----~--~~~~~~~~~~~-~~~~~~~~~~~~i~D~~G~-------   93 (202)
                      +....++|.|+|..|.|||||+|+|+........     .  .+.+....... +...++-...+.++||||.       
T Consensus        42 k~GF~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN~  121 (336)
T KOG1547|consen   42 KTGFDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINND  121 (336)
T ss_pred             hccCceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCcc
Confidence            3456899999999999999999999875432211     1  11111221111 2223555688999999991       


Q ss_pred             -----------hhh--------hhcccccccC--ccEEEEEEeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCC
Q 028884           94 -----------ERY--------AALAPLYYRG--AAVAVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADL  151 (202)
Q Consensus        94 -----------~~~--------~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~  151 (202)
                                 +.|        .......++.  +++.+|.+..+. .++..+ -++++.+...    +.++-|+.|.|-
T Consensus       122 ncWePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptG-hsLrplDieflkrLt~v----vNvvPVIakaDt  196 (336)
T KOG1547|consen  122 NCWEPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTG-HSLRPLDIEFLKRLTEV----VNVVPVIAKADT  196 (336)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCC-CccCcccHHHHHHHhhh----heeeeeEeeccc
Confidence                       111        1122233333  445555555543 223333 3344444332    448889999995


Q ss_pred             CC--CCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          152 HE--KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       152 ~~--~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      ..  ++..-.+.+++....+++.+|+--+.+...-+..++.
T Consensus       197 lTleEr~~FkqrI~~el~~~~i~vYPq~~fded~ed~~lN~  237 (336)
T KOG1547|consen  197 LTLEERSAFKQRIRKELEKHGIDVYPQDSFDEDLEDKTLND  237 (336)
T ss_pred             ccHHHHHHHHHHHHHHHHhcCcccccccccccchhHHHHHH
Confidence            43  2222334455555567777777655554433333333

>PRK12288 GTPase RsgA; Reviewed

Probab=98.92  E-value=8.5e-09  Score=80.96  Aligned_cols=88  Identities=17%  Similarity=0.186  Sum_probs=68.0

Q ss_pred             ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC-CChHHHHHHHHHcCCeEEEeccCCCC
Q 028884          104 YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE-VPAQDGIEYAEKNGMFFIETSAKTAD  182 (202)
Q Consensus       104 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~-~~~~~~~~~~~~~~~~~~~~s~~~~~  182 (202)
                      ..++|.+++|++.....++..+..|+..+..   .++|++||+||+|+..... .............+.+++.+|++++.
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~---~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg~  194 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVACET---LGIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVSSHTGE  194 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEeCCCCc
Confidence            4669999999999888889999999875543   4688999999999965432 11222333445678899999999999


Q ss_pred             CHHHHHHHHHHH
Q 028884          183 NINQLFEEIAKR  194 (202)
Q Consensus       183 ~i~~~~~~l~~~  194 (202)
                      |++++++.|...
T Consensus       195 GideL~~~L~~k  206 (347)
T PRK12288        195 GLEELEAALTGR  206 (347)
T ss_pred             CHHHHHHHHhhC
Confidence            999999998754

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.90  E-value=8.8e-09  Score=79.44  Aligned_cols=123  Identities=14%  Similarity=0.205  Sum_probs=79.5

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc-cccceeEEEEEEEec------CCc----------------------
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK-VTVGASFLSQTIALQ------DST----------------------   81 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~------~~~----------------------   81 (202)
                      +...=|+++|.-..||||||+.|+.+.++.... +..++++....+.-+      ++.                      
T Consensus        56 d~KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnR  135 (532)
T KOG1954|consen   56 DAKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNR  135 (532)
T ss_pred             ccCceEEEEeccccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHH
Confidence            455679999999999999999999998864432 233333333222111      000                      


Q ss_pred             ----------EEEEEEEeCCChhh-----------hhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCC
Q 028884           82 ----------TVKFEIWDTAGQER-----------YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDI  140 (202)
Q Consensus        82 ----------~~~~~i~D~~G~~~-----------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~  140 (202)
                                .-.+.++||||.-+           |......+...+|.+|++||+..-+--++....+..++.++   -
T Consensus       136 f~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~E---d  212 (532)
T KOG1954|consen  136 FMCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGHE---D  212 (532)
T ss_pred             HHHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCCc---c
Confidence                      01578999999432           33445667778999999999875432234444555565553   3


Q ss_pred             eEEEEEeCCCCCCCCC
Q 028884          141 VMALVGNKADLHEKRE  156 (202)
Q Consensus       141 p~ivv~nK~D~~~~~~  156 (202)
                      .+-||+||.|..+.++
T Consensus       213 kiRVVLNKADqVdtqq  228 (532)
T KOG1954|consen  213 KIRVVLNKADQVDTQQ  228 (532)
T ss_pred             eeEEEeccccccCHHH
Confidence            3788899999765433

>PRK00098 GTPase RsgA; Reviewed

Probab=98.90  E-value=6e-09  Score=80.48  Aligned_cols=86  Identities=23%  Similarity=0.232  Sum_probs=64.4

Q ss_pred             cccCccEEEEEEeCCChhHHH-HHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCC
Q 028884          103 YYRGAAVAVVVYDITSPDSFN-KAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTA  181 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~s~~-~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~  181 (202)
                      .+.++|++++|+|+.++.... .+..|+..+..   .++|+++|+||+|+.+... ............+.+++.+|++++
T Consensus        77 iaaniD~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlNK~DL~~~~~-~~~~~~~~~~~~g~~v~~vSA~~g  152 (298)
T PRK00098         77 IAANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLNKIDLLDDLE-EARELLALYRAIGYDVLELSAKEG  152 (298)
T ss_pred             eeecCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEhHHcCCCHH-HHHHHHHHHHHCCCeEEEEeCCCC
Confidence            358899999999998875443 44777766653   3689999999999863221 122344455567889999999999


Q ss_pred             CCHHHHHHHHH
Q 028884          182 DNINQLFEEIA  192 (202)
Q Consensus       182 ~~i~~~~~~l~  192 (202)
                      .|++++++.+.
T Consensus       153 ~gi~~L~~~l~  163 (298)
T PRK00098        153 EGLDELKPLLA  163 (298)
T ss_pred             ccHHHHHhhcc
Confidence            99999998874

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=98.89  E-value=2.6e-08  Score=77.24  Aligned_cols=164  Identities=17%  Similarity=0.161  Sum_probs=102.0

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc--------------cccceeEEEEEEEecCCcE-------------
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK--------------VTVGASFLSQTIALQDSTT-------------   82 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~-------------   82 (202)
                      .+..+.+.++|+.+.|||||+-.|..+..+...-              ...+.+.+...+.+.++..             
T Consensus       114 ~~~hv~Vg~aGhVdhGKSTlvG~LvtG~~DDG~G~tR~~ldv~kHEverGlsa~iS~~v~Gf~dgk~~rlknPld~aE~~  193 (527)
T COG5258         114 APEHVLVGVAGHVDHGKSTLVGVLVTGRLDDGDGATRSYLDVQKHEVERGLSADISLRVYGFDDGKVVRLKNPLDEAEKA  193 (527)
T ss_pred             CCceEEEEEeccccCCcceEEEEEEecCCCCCCcchhhhhhhhhHHHhhccccceeEEEEEecCCceEeecCcccHHHHh
Confidence            4568999999999999999997776554322111              1123333344444433332             


Q ss_pred             -------EEEEEEeCCChhhhhhccc--ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           83 -------VKFEIWDTAGQERYAALAP--LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        83 -------~~~~i~D~~G~~~~~~~~~--~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                             ..+.|+|+.|++.|-....  ..=+..|..++++.+++.-+- ..++.+-.+...   +.|+++++||+|+..
T Consensus       194 ~vv~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~-~tkEHLgi~~a~---~lPviVvvTK~D~~~  269 (527)
T COG5258         194 AVVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTK-MTKEHLGIALAM---ELPVIVVVTKIDMVP  269 (527)
T ss_pred             HhhhhcccEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcch-hhhHhhhhhhhh---cCCEEEEEEecccCc
Confidence                   3578999999998754332  233457999999999987321 224444444433   789999999999865


Q ss_pred             CCCC--ChHHHHHH----------------------HHH---cCCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          154 KREV--PAQDGIEY----------------------AEK---NGMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       154 ~~~~--~~~~~~~~----------------------~~~---~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      ...+  ..++..+.                      +.+   .-.|++.+|+.+|+|++- ++.+...+.++
T Consensus       270 ddr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~Gldl-L~e~f~~Lp~r  340 (527)
T COG5258         270 DDRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDL-LDEFFLLLPKR  340 (527)
T ss_pred             HHHHHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHH-HHHHHHhCCcc
Confidence            3211  01111111                      111   124789999999999984 55556666555

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=98.89  E-value=7.1e-08  Score=74.93  Aligned_cols=85  Identities=15%  Similarity=0.092  Sum_probs=55.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecC---------------CcEEEEEEEeCCChhh--
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQD---------------STTVKFEIWDTAGQER--   95 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~i~D~~G~~~--   95 (202)
                      .+++.++|.|++|||||.|.++.........|..+.+...-.+....               .....+.++|.+|.-.  
T Consensus         2 ~l~~GIVGlPNVGKSTlFnAlT~~~a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~GA   81 (372)
T COG0012           2 SLKIGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKGA   81 (372)
T ss_pred             CceeEEecCCCCcHHHHHHHHHcCCccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCCc
Confidence            47899999999999999999998775434444444433333222211               1135688999998421  


Q ss_pred             -----hhhcccccccCccEEEEEEeCC
Q 028884           96 -----YAALAPLYYRGAAVAVVVYDIT  117 (202)
Q Consensus        96 -----~~~~~~~~~~~~d~~i~v~d~~  117 (202)
                           ..-..-..++.+|+++-|++..
T Consensus        82 s~GeGLGNkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          82 SKGEGLGNKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             ccCCCcchHHHHhhhhcCeEEEEEEec
Confidence                 2222333477799999998875

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=98.84  E-value=6.4e-09  Score=83.68  Aligned_cols=158  Identities=21%  Similarity=0.397  Sum_probs=112.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      -+++|+.|+|..++|||+|+++|+.+.|.+...+ .+..+ .+.+.. ++....+.+.|.+|...     ..+...+|++
T Consensus        28 ipelk~givg~~~sgktalvhr~ltgty~~~e~~-e~~~~-kkE~vv-~gqs~lLlirdeg~~~~-----aQft~wvdav   99 (749)
T KOG0705|consen   28 IPELKLGIVGTSQSGKTALVHRYLTGTYTQDESP-EGGRF-KKEVVV-DGQSHLLLIRDEGGHPD-----AQFCQWVDAV   99 (749)
T ss_pred             cchhheeeeecccCCceeeeeeeccceeccccCC-cCccc-eeeEEe-eccceEeeeecccCCch-----hhhhhhccce
Confidence            3579999999999999999999999888665443 33333 333333 34446788888888432     3345568999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCC--CCCCChHHHHHHHHH-cCCeEEEeccCCCCCHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHE--KREVPAQDGIEYAEK-NGMFFIETSAKTADNINQ  186 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~--~~~~~~~~~~~~~~~-~~~~~~~~s~~~~~~i~~  186 (202)
                      |+||...+..+|+.+..+...+... ....+|.++++++.-...  .+.+......+++.. ..+.+|+.++..|-++..
T Consensus       100 Ifvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy~et~atyGlnv~r  179 (749)
T KOG0705|consen  100 VFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSYYETCATYGLNVER  179 (749)
T ss_pred             EEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHHHhcCccceeecchhhhhhHHH
Confidence            9999999998898887766655433 234677888877655432  234444555555544 456799999999999999


Q ss_pred             HHHHHHHHcC
Q 028884          187 LFEEIAKRLP  196 (202)
Q Consensus       187 ~~~~l~~~i~  196 (202)
                      .|+.+...+.
T Consensus       180 vf~~~~~k~i  189 (749)
T KOG0705|consen  180 VFQEVAQKIV  189 (749)
T ss_pred             HHHHHHHHHH
Confidence            9998877653

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=98.83  E-value=9.3e-08  Score=73.13  Aligned_cols=167  Identities=16%  Similarity=0.201  Sum_probs=106.1

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhC----------CCCC----CCccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRG----------QFDP----TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~----------~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      ....+..||.-+|+...|||||--.+..-          +|++    .....-+..+....+.|.-.. ..+.=+|+||+
T Consensus        49 ~R~KPHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGITIn~aHveYeTa~-RhYaH~DCPGH  127 (449)
T KOG0460|consen   49 VRDKPHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGITINAAHVEYETAK-RHYAHTDCPGH  127 (449)
T ss_pred             ccCCCcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccceEeeeeeeeeccc-cccccCCCCch
Confidence            33467899999999999999998766531          1111    111222333333334333222 56778899999


Q ss_pred             hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC---CChHHHHHHHHHcC
Q 028884           94 ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE---VPAQDGIEYAEKNG  170 (202)
Q Consensus        94 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~---~~~~~~~~~~~~~~  170 (202)
                      ..|-.....-....|+.|+|+.++|.. ..+.++.+...++...  ..++|++||.|+.++.+   .-+.+++++..+++
T Consensus       128 ADYIKNMItGaaqMDGaILVVaatDG~-MPQTrEHlLLArQVGV--~~ivvfiNKvD~V~d~e~leLVEmE~RElLse~g  204 (449)
T KOG0460|consen  128 ADYIKNMITGAAQMDGAILVVAATDGP-MPQTREHLLLARQVGV--KHIVVFINKVDLVDDPEMLELVEMEIRELLSEFG  204 (449)
T ss_pred             HHHHHHhhcCccccCceEEEEEcCCCC-CcchHHHHHHHHHcCC--ceEEEEEecccccCCHHHHHHHHHHHHHHHHHcC
Confidence            998776666666789999999999874 3455666655565543  23778889999885432   23445666666664


Q ss_pred             -----CeEEEec---cCCCCC-------HHHHHHHHHHHcCCC
Q 028884          171 -----MFFIETS---AKTADN-------INQLFEEIAKRLPRP  198 (202)
Q Consensus       171 -----~~~~~~s---~~~~~~-------i~~~~~~l~~~i~~~  198 (202)
                           +|++.=|   |++|.+       +..+++.+-++|..|
T Consensus       205 f~Gd~~PvI~GSAL~ALeg~~peig~~aI~kLldavDsyip~P  247 (449)
T KOG0460|consen  205 FDGDNTPVIRGSALCALEGRQPEIGLEAIEKLLDAVDSYIPTP  247 (449)
T ss_pred             CCCCCCCeeecchhhhhcCCCccccHHHHHHHHHHHhccCCCc
Confidence                 4566644   566632       556666666655544

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.82  E-value=1.3e-08  Score=74.29  Aligned_cols=160  Identities=19%  Similarity=0.219  Sum_probs=94.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEE-EEecCCcEEEEEEEeCCChhhhh---hcccccccCccE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQT-IALQDSTTVKFEIWDTAGQERYA---ALAPLYYRGAAV  109 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~G~~~~~---~~~~~~~~~~d~  109 (202)
                      .+|+++|...|||||+-+-.+..-. +...  ...+.+.+. ...--+..+.+++||.||+-.+-   --....++.+.+
T Consensus        28 p~ilLMG~rRsGKsSI~KVVFhkMs-PneT--lflESTski~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gA  104 (347)
T KOG3887|consen   28 PRILLMGLRRSGKSSIQKVVFHKMS-PNET--LFLESTSKITRDHISNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVGA  104 (347)
T ss_pred             ceEEEEeecccCcchhhheeeeccC-CCce--eEeeccCcccHhhhhhhhcceEEeecCCccccCCCccCHHHHHhccCe
Confidence            4599999999999998766655332 2211  111111111 01111244789999999976532   223456788999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHc--CCCCCeEEEEEeCCCCCCCCCCC--hHHHHHHH---------HHcCCeEEEe
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKH--GSPDIVMALVGNKADLHEKREVP--AQDGIEYA---------EKNGMFFIET  176 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~--~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~---------~~~~~~~~~~  176 (202)
                      +|+|+|+.+.- .+.+......+.+.  -++++.+-|++.|.|...+....  ..++.+..         ....+.++.+
T Consensus       105 LifvIDaQddy-~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kietqrdI~qr~~d~l~d~gle~v~vsf~LT  183 (347)
T KOG3887|consen  105 LIFVIDAQDDY-MEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIETQRDIHQRTNDELADAGLEKVQVSFYLT  183 (347)
T ss_pred             EEEEEechHHH-HHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhhhhhhHHHHHHHhhHHHHhhhhccceEEEEEe
Confidence            99999998752 22333333333332  47788899999999976532111  11111111         1123457777


Q ss_pred             ccCCCCCHHHHHHHHHHHcCCC
Q 028884          177 SAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       177 s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      |..+ -++-++|..+++.+.+.
T Consensus       184 SIyD-HSIfEAFSkvVQkLipq  204 (347)
T KOG3887|consen  184 SIYD-HSIFEAFSKVVQKLIPQ  204 (347)
T ss_pred             eecc-hHHHHHHHHHHHHHhhh
Confidence            7766 66888999888887654

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.81  E-value=5.4e-08  Score=79.01  Aligned_cols=142  Identities=15%  Similarity=0.153  Sum_probs=86.2

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGA  107 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~  107 (202)
                      ...++.+-++|+|+||+||||||+.|...-...... .+     .-.+....+...++.+.++|..  ..++. ...+-+
T Consensus        64 ~d~PPPfIvavvGPpGtGKsTLirSlVrr~tk~ti~-~i-----~GPiTvvsgK~RRiTflEcp~D--l~~mi-DvaKIa  134 (1077)
T COG5192          64 KDLPPPFIVAVVGPPGTGKSTLIRSLVRRFTKQTID-EI-----RGPITVVSGKTRRITFLECPSD--LHQMI-DVAKIA  134 (1077)
T ss_pred             ccCCCCeEEEeecCCCCChhHHHHHHHHHHHHhhhh-cc-----CCceEEeecceeEEEEEeChHH--HHHHH-hHHHhh
Confidence            444678889999999999999999887633211111 11     1112222455579999999943  23332 245668


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHH-----HHHHH-cCCeEEEeccCCC
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGI-----EYAEK-NGMFFIETSAKTA  181 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~-----~~~~~-~~~~~~~~s~~~~  181 (202)
                      |.|++++|.+-+..++. -+|+..+..+..+.  ++-|+|+.|+.....-......     -|-.. .++++|.+|...+
T Consensus       135 DLVlLlIdgnfGfEMET-mEFLnil~~HGmPr--vlgV~ThlDlfk~~stLr~~KKrlkhRfWtEiyqGaKlFylsgV~n  211 (1077)
T COG5192         135 DLVLLLIDGNFGFEMET-MEFLNILISHGMPR--VLGVVTHLDLFKNPSTLRSIKKRLKHRFWTEIYQGAKLFYLSGVEN  211 (1077)
T ss_pred             heeEEEeccccCceehH-HHHHHHHhhcCCCc--eEEEEeecccccChHHHHHHHHHHhhhHHHHHcCCceEEEeccccc
Confidence            99999999998844443 44666666664332  6677899998765332111111     11111 2667777775543

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=98.80  E-value=1.4e-07  Score=78.04  Aligned_cols=147  Identities=15%  Similarity=0.222  Sum_probs=89.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEE--------------------------------------
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLS--------------------------------------   72 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~--------------------------------------   72 (202)
                      ....||++.|..++||||++|.++..+.-+......+..+..                                      
T Consensus       107 r~~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~  186 (749)
T KOG0448|consen  107 RRHMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDL  186 (749)
T ss_pred             hcccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCccccc
Confidence            456899999999999999999998865433322111111111                                      


Q ss_pred             -----EEEEecCCcE----EEEEEEeCCChh---hhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCC
Q 028884           73 -----QTIALQDSTT----VKFEIWDTAGQE---RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDI  140 (202)
Q Consensus        73 -----~~~~~~~~~~----~~~~i~D~~G~~---~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~  140 (202)
                           -.+.++++..    =.+.++|.||.+   ...+....+...+|++|+|..+.+-.+..+ .+++..+...   +.
T Consensus       187 ~~~sLlrV~~p~~~csLLrnDivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~se-k~Ff~~vs~~---Kp  262 (749)
T KOG0448|consen  187 GAGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSE-KQFFHKVSEE---KP  262 (749)
T ss_pred             CcceEEEEEecCccchhhhccceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHH-HHHHHHhhcc---CC
Confidence                 0111111100    147899999954   345666677788999999999888644333 3344444332   23


Q ss_pred             eEEEEEeCCCCCCCCCCChHHHHHHHHHcCC--------eEEEeccCCC
Q 028884          141 VMALVGNKADLHEKREVPAQDGIEYAEKNGM--------FFIETSAKTA  181 (202)
Q Consensus       141 p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~--------~~~~~s~~~~  181 (202)
                      .++|+.||+|.....+.-.++......++..        .++++|++.-
T Consensus       263 niFIlnnkwDasase~ec~e~V~~Qi~eL~v~~~~eA~DrvfFVS~~e~  311 (749)
T KOG0448|consen  263 NIFILNNKWDASASEPECKEDVLKQIHELSVVTEKEAADRVFFVSAKEV  311 (749)
T ss_pred             cEEEEechhhhhcccHHHHHHHHHHHHhcCcccHhhhcCeeEEEeccch
Confidence            3666678999876655545555555444322        4788886654

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=98.77  E-value=1.1e-08  Score=76.04  Aligned_cols=156  Identities=21%  Similarity=0.188  Sum_probs=90.3

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCcc-ccceeEEEEEEEecCCcEEEEEEEeCCC----------hhhhhh
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGASFLSQTIALQDSTTVKFEIWDTAG----------QERYAA   98 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~   98 (202)
                      .....+++++|..++|||||||-++..+....... ..+.......+.. +   -.+.++|.||          ...+..
T Consensus       133 k~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v-~---~~~~~vDlPG~~~a~y~~~~~~d~~~  208 (320)
T KOG2486|consen  133 KDKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHV-G---KSWYEVDLPGYGRAGYGFELPADWDK  208 (320)
T ss_pred             CCCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeec-c---ceEEEEecCCcccccCCccCcchHhH
Confidence            45679999999999999999999988654333322 2222222222222 1   3688899999          122333


Q ss_pred             cccccccCcc---EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCC------CCC-----hHHHHH
Q 028884           99 LAPLYYRGAA---VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKR------EVP-----AQDGIE  164 (202)
Q Consensus        99 ~~~~~~~~~d---~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~------~~~-----~~~~~~  164 (202)
                      +...|+.+-+   -+++++|++-+  +.....  ..+.-.+..++|..+|+||+|.....      ...     ......
T Consensus       209 ~t~~Y~leR~nLv~~FLLvd~sv~--i~~~D~--~~i~~~ge~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~~l~~  284 (320)
T KOG2486|consen  209 FTKSYLLERENLVRVFLLVDASVP--IQPTDN--PEIAWLGENNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGLIR  284 (320)
T ss_pred             hHHHHHHhhhhhheeeeeeeccCC--CCCCCh--HHHHHHhhcCCCeEEeeehhhhhhhccccccCccccceeehhhccc
Confidence            4444443322   34566777654  221111  11222334589999999999975321      111     111122


Q ss_pred             HHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          165 YAEKNGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       165 ~~~~~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      .+.....+.+.+|+.++.|+++++-.+.+
T Consensus       285 ~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q  313 (320)
T KOG2486|consen  285 GVFLVDLPWIYVSSVTSLGRDLLLLHIAQ  313 (320)
T ss_pred             cceeccCCceeeecccccCceeeeeehhh
Confidence            22233456778999999999987765544

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.76  E-value=5.5e-08  Score=77.08  Aligned_cols=95  Identities=28%  Similarity=0.304  Sum_probs=68.5

Q ss_pred             hhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHH----HHHHH
Q 028884           93 QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGI----EYAEK  168 (202)
Q Consensus        93 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~----~~~~~  168 (202)
                      .+.|..+...+.+.++++++|+|+.+..     ..|...+.... .+.|+++|+||+|+.... ...+...    ++++.
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~-~~~piilV~NK~DLl~k~-~~~~~~~~~l~~~~k~  122 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFV-GGNPVLLVGNKIDLLPKS-VNLSKIKEWMKKRAKE  122 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHh-CCCCEEEEEEchhhCCCC-CCHHHHHHHHHHHHHH
Confidence            4678888888888999999999997652     22334444332 267899999999986532 2233333    33555


Q ss_pred             cCC---eEEEeccCCCCCHHHHHHHHHHH
Q 028884          169 NGM---FFIETSAKTADNINQLFEEIAKR  194 (202)
Q Consensus       169 ~~~---~~~~~s~~~~~~i~~~~~~l~~~  194 (202)
                      .++   .++.+||+++.|++++++.|.+.
T Consensus       123 ~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       123 LGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             cCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            665   38999999999999999999765

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.

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.76  E-value=1.8e-07  Score=69.12  Aligned_cols=153  Identities=17%  Similarity=0.120  Sum_probs=95.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh-------hhhcccccccC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER-------YAALAPLYYRG  106 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~  106 (202)
                      .+|-++|-|.+||||++..+.+... +......++-.+..-....++  ..+++.|.||.-+       .........+.
T Consensus        60 a~vg~vgFPSvGksTl~~~l~g~~s-~vasyefttl~~vpG~~~y~g--aKiqlldlpgiiegakdgkgrg~qviavart  136 (358)
T KOG1487|consen   60 ARVGFVGFPSVGKSTLLSKLTGTFS-EVAAYEFTTLTTVPGVIRYKG--AKIQLLDLPGIIEGAKDGKGRGKQVIAVART  136 (358)
T ss_pred             eeeeEEecCccchhhhhhhhcCCCC-ccccccceeEEEecceEeccc--cceeeecCcchhcccccCCCCccEEEEEeec
Confidence            4899999999999999999987543 222222233222222221222  3799999999432       23455667788


Q ss_pred             ccEEEEEEeCCChhHHHHH-HHHHHHHHHc--------------------------------------------------
Q 028884          107 AAVAVVVYDITSPDSFNKA-QYWVKELQKH--------------------------------------------------  135 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~--------------------------------------------------  135 (202)
                      ++.+++|.|...|-+-..+ .+.++-+--+                                                  
T Consensus       137 cnli~~vld~~kp~~hk~~ie~eleg~girlnk~pp~i~~kkKdkgGInlt~~~LdlD~~rsil~eyR~hsAdi~Lr~Da  216 (358)
T KOG1487|consen  137 CNLIFIVLDVLKPLSHKKIIEKELEGFGIRLNKQPPNIGTKKKDKGGINLTGTHLDLDLQRSILSEYRIHSADIALRFDA  216 (358)
T ss_pred             ccEEEEEeeccCcccHHHHHHHhhhcceeeccCCCCCccccccccCceeeecchhhHHHHHHHHHHhhhcchheeeecCc
Confidence            9999999998877443332 3333311000                                                  


Q ss_pred             ---------C--CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          136 ---------G--SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       136 ---------~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                               +  ..-+|+++++||+|...-++..     -..  .-...+.+|+.+++|++++++.+.+.+.
T Consensus       217 T~DdLIdvVegnr~yVp~iyvLNkIdsISiEELd-----ii~--~iphavpISA~~~wn~d~lL~~mweyL~  281 (358)
T KOG1487|consen  217 TADDLIDVVEGNRIYVPCIYVLNKIDSISIEELD-----IIY--TIPHAVPISAHTGWNFDKLLEKMWEYLK  281 (358)
T ss_pred             chhhhhhhhccCceeeeeeeeecccceeeeeccc-----eee--eccceeecccccccchHHHHHHHhhcch
Confidence                     0  0147788888888854322111     110  1123688999999999999999988764

>cd01858 NGP_1 NGP-1

Probab=98.75  E-value=2.9e-08  Score=69.59  Aligned_cols=90  Identities=17%  Similarity=0.107  Sum_probs=56.9

Q ss_pred             cccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCC
Q 028884          103 YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD  182 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  182 (202)
                      .+..+|++++|+|++++..- ....+...+... ..++|+++|+||+|+.+.... ......+........+.+|++.+.
T Consensus         5 ~l~~aD~il~VvD~~~p~~~-~~~~i~~~l~~~-~~~~p~ilVlNKiDl~~~~~~-~~~~~~~~~~~~~~~~~iSa~~~~   81 (157)
T cd01858           5 VIDSSDVVIQVLDARDPMGT-RCKHVEEYLKKE-KPHKHLIFVLNKCDLVPTWVT-ARWVKILSKEYPTIAFHASINNPF   81 (157)
T ss_pred             hhhhCCEEEEEEECCCCccc-cCHHHHHHHHhc-cCCCCEEEEEEchhcCCHHHH-HHHHHHHhcCCcEEEEEeeccccc
Confidence            46779999999999987321 112222223322 346899999999998643211 111112222222235779999999


Q ss_pred             CHHHHHHHHHHHc
Q 028884          183 NINQLFEEIAKRL  195 (202)
Q Consensus       183 ~i~~~~~~l~~~i  195 (202)
                      |++++++.|.+.+
T Consensus        82 ~~~~L~~~l~~~~   94 (157)
T cd01858          82 GKGSLIQLLRQFS   94 (157)
T ss_pred             cHHHHHHHHHHHH
Confidence            9999999998764

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.

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=98.75  E-value=9.9e-07  Score=69.75  Aligned_cols=154  Identities=19%  Similarity=0.217  Sum_probs=89.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCC----------------Cccccce--------eEEEEEEEecCCcEEEEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPT----------------SKVTVGA--------SFLSQTIALQDSTTVKFEIW   88 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~----------------~~~~~~~--------~~~~~~~~~~~~~~~~~~i~   88 (202)
                      .+=|.|+|+..+||||||+||...-..+.                ....-+.        .-....+.+.++-.+++.++
T Consensus        17 dIYiGVVGPVRTGKSTFIKRFMel~VlPnI~d~~~reRa~DELPQS~aGktImTTEPKFiP~eAv~I~l~~~~~~kVRLi   96 (492)
T PF09547_consen   17 DIYIGVVGPVRTGKSTFIKRFMELLVLPNIEDEYERERARDELPQSGAGKTIMTTEPKFIPNEAVEITLDDGIKVKVRLI   96 (492)
T ss_pred             ceEEEeecCcccCchhHHHHHHHHhcCCCCCCHHHHHHhhhcCCcCCCCCceeccCCcccCCcceEEEecCCceEEEEEE
Confidence            47789999999999999999976422111                0000000        01111344556667899999


Q ss_pred             eCCChh-------------h----------------hhhccccccc--CccEEEEEEeCCC----hhHHHHH-HHHHHHH
Q 028884           89 DTAGQE-------------R----------------YAALAPLYYR--GAAVAVVVYDITS----PDSFNKA-QYWVKEL  132 (202)
Q Consensus        89 D~~G~~-------------~----------------~~~~~~~~~~--~~d~~i~v~d~~~----~~s~~~~-~~~~~~i  132 (202)
                      |+.|--             +                ...-++..+.  ..-++++.-|.+-    ++.+... .+.+..+
T Consensus        97 DCVGy~V~gA~Gy~e~~~pRmV~TPWfd~eIPF~eAAeiGT~KVI~dHSTIGiVVTTDGSi~dipRe~Y~eAEervI~EL  176 (492)
T PF09547_consen   97 DCVGYMVEGALGYEEEEGPRMVKTPWFDEEIPFEEAAEIGTRKVITDHSTIGIVVTTDGSITDIPRENYVEAEERVIEEL  176 (492)
T ss_pred             eecceeecCccccccCCCceeecCCCCCCCCCHHHHHhhcccceeccCCceeEEEecCCCccCCChHHHHHHHHHHHHHH
Confidence            999810             0                0000111111  1237777788762    3344333 4444555


Q ss_pred             HHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCC--CCCHHHHHHHH
Q 028884          133 QKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT--ADNINQLFEEI  191 (202)
Q Consensus       133 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~--~~~i~~~~~~l  191 (202)
                      ...   ++|++|++|-.+-  ......+...++..+++++++.+++..  ..++..+++.+
T Consensus       177 k~i---gKPFvillNs~~P--~s~et~~L~~eL~ekY~vpVlpvnc~~l~~~DI~~Il~~v  232 (492)
T PF09547_consen  177 KEI---GKPFVILLNSTKP--YSEETQELAEELEEKYDVPVLPVNCEQLREEDITRILEEV  232 (492)
T ss_pred             HHh---CCCEEEEEeCCCC--CCHHHHHHHHHHHHHhCCcEEEeehHHcCHHHHHHHHHHH
Confidence            544   7999999998872  233345556677778899988877654  33444444443

It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.72  E-value=4.7e-08  Score=69.43  Aligned_cols=57  Identities=21%  Similarity=0.315  Sum_probs=38.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG   92 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   92 (202)
                      ...++++|+|.||+|||||+|+|.+......... .+.......+.+.    ..+.++||||
T Consensus       115 ~~~~~~~~vG~pnvGKSslin~l~~~~~~~~~~~-pg~T~~~~~~~~~----~~~~l~DtPG  171 (172)
T cd04178         115 KTSITVGVVGFPNVGKSSLINSLKRSRACNVGAT-PGVTKSMQEVHLD----KKVKLLDSPG  171 (172)
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCcccceecCC-CCeEcceEEEEeC----CCEEEEECcC
Confidence            4468999999999999999999998765433332 2222222223322    2588999999

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

>cd01858 NGP_1 NGP-1

Probab=98.72  E-value=5e-08  Score=68.36  Aligned_cols=56  Identities=21%  Similarity=0.329  Sum_probs=37.1

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG   92 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   92 (202)
                      ..++|+++|.+|+|||||+|+|.+.......... +.......+...  .  .+.++||||
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~~~~~~~~~~~-g~T~~~~~~~~~--~--~~~liDtPG  156 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRSKKVCKVAPIP-GETKVWQYITLM--K--RIYLIDCPG  156 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhcCCceeeCCCC-CeeEeEEEEEcC--C--CEEEEECcC
Confidence            4678999999999999999999986653333322 222222222221  2  378999999

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.69  E-value=5.2e-08  Score=67.07  Aligned_cols=54  Identities=28%  Similarity=0.304  Sum_probs=37.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      +++++|.+|+|||||+|++.+......... .+.......+.+.+    .+.+|||||.
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~~~~~-~~~~~~~~~~~~~~----~~~i~DtpG~  138 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVSVSAT-PGKTKHFQTIFLTP----TITLCDCPGL  138 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCC-CCcccceEEEEeCC----CEEEEECCCc
Confidence            899999999999999999998775433221 22222233333322    4799999995

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.

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.68  E-value=1.2e-07  Score=73.40  Aligned_cols=160  Identities=16%  Similarity=0.247  Sum_probs=98.8

Q ss_pred             CCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc--------------cc---------cceeEEEEEEEecCC---
Q 028884           27 SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK--------------VT---------VGASFLSQTIALQDS---   80 (202)
Q Consensus        27 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~--------------~~---------~~~~~~~~~~~~~~~---   80 (202)
                      .....-.++++|+|.-.+|||||+--|..+..+...-              ..         .+.+.....+.+.+.   
T Consensus       161 d~QqfievRvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~ta  240 (591)
T KOG1143|consen  161 DSQQFIEVRVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTA  240 (591)
T ss_pred             CcccceEEEEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhcccccccccccchhhcccH
Confidence            3334458999999999999999998777654322211              00         111111111111111   


Q ss_pred             ------cEEEEEEEeCCChhhhhhcccccccC--ccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 028884           81 ------TTVKFEIWDTAGQERYAALAPLYYRG--AAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH  152 (202)
Q Consensus        81 ------~~~~~~i~D~~G~~~~~~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~  152 (202)
                            ..-.+.++|..|+.+|.......+.+  .|.++++++++....+. .++.+-.+...   ++|++|+++|+|+.
T Consensus       241 EEi~e~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~t-TrEHLgl~~AL---~iPfFvlvtK~Dl~  316 (591)
T KOG1143|consen  241 EEIVEKSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWT-TREHLGLIAAL---NIPFFVLVTKMDLV  316 (591)
T ss_pred             HHHHhhhcceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCccc-cHHHHHHHHHh---CCCeEEEEEeeccc
Confidence                  12358899999999998777666654  48899999998774432 34455555544   79999999999986


Q ss_pred             CCCCC------------------------ChHHHH----HHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          153 EKREV------------------------PAQDGI----EYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       153 ~~~~~------------------------~~~~~~----~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      .....                        ...++.    +.+...-.|++.+|+..|++++-+-..
T Consensus       317 ~~~~~~~tv~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll~~f  382 (591)
T KOG1143|consen  317 DRQGLKKTVKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLLRTF  382 (591)
T ss_pred             cchhHHHHHHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHHHHH
Confidence            54211                        111111    111122346888999999998754433

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.64  E-value=1.2e-07  Score=66.24  Aligned_cols=82  Identities=20%  Similarity=0.107  Sum_probs=54.3

Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHH-HHHHHcCCeEEEeccCCCCCHHH
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGI-EYAEKNGMFFIETSAKTADNINQ  186 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~-~~~~~~~~~~~~~s~~~~~~i~~  186 (202)
                      |++++|+|+.++.+..  ..++.. ......++|+++|+||+|+.+...  ..... .+.......++.+|++++.|+++
T Consensus         1 Dvvl~VvD~~~p~~~~--~~~i~~-~~~~~~~~p~IiVlNK~Dl~~~~~--~~~~~~~~~~~~~~~ii~vSa~~~~gi~~   75 (155)
T cd01849           1 DVILEVLDARDPLGTR--SPDIER-VLIKEKGKKLILVLNKADLVPKEV--LRKWLAYLRHSYPTIPFKISATNGQGIEK   75 (155)
T ss_pred             CEEEEEEeccCCcccc--CHHHHH-HHHhcCCCCEEEEEechhcCCHHH--HHHHHHHHHhhCCceEEEEeccCCcChhh
Confidence            7899999999875433  223321 112234789999999999854321  11111 23233455689999999999999


Q ss_pred             HHHHHHHH
Q 028884          187 LFEEIAKR  194 (202)
Q Consensus       187 ~~~~l~~~  194 (202)
                      +++.+.+.
T Consensus        76 L~~~i~~~   83 (155)
T cd01849          76 KESAFTKQ   83 (155)
T ss_pred             HHHHHHHH
Confidence            99988764

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.

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=98.60  E-value=1.5e-07  Score=78.53  Aligned_cols=115  Identities=20%  Similarity=0.177  Sum_probs=75.3

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCC------------CCCCCc--cccceeEEEEEEEecCCcEEEEEEEeCCChhhhh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQ------------FDPTSK--VTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA   97 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~------------~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   97 (202)
                      ..-+|+++.+...|||||+..|....            |.....  .+-+..-....+.+.... +.+.++|+||+-.|.
T Consensus         8 ~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~~~~-~~~nlidspghvdf~   86 (887)
T KOG0467|consen    8 GIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLLHKD-YLINLIDSPGHVDFS   86 (887)
T ss_pred             ceeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccccccCc-eEEEEecCCCccchh
Confidence            45789999999999999999998642            111111  111111111122222233 789999999999999


Q ss_pred             hcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCC
Q 028884           98 ALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL  151 (202)
Q Consensus        98 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~  151 (202)
                      +......+-+|++++++|+..+-.-+..    ..+++.-..+..+++|+||+|.
T Consensus        87 sevssas~l~d~alvlvdvvegv~~qt~----~vlrq~~~~~~~~~lvinkidr  136 (887)
T KOG0467|consen   87 SEVSSASRLSDGALVLVDVVEGVCSQTY----AVLRQAWIEGLKPILVINKIDR  136 (887)
T ss_pred             hhhhhhhhhcCCcEEEEeeccccchhHH----HHHHHHHHccCceEEEEehhhh
Confidence            9999999999999999999876322221    1111110123447899999993

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.59  E-value=1.2e-06  Score=64.89  Aligned_cols=89  Identities=12%  Similarity=0.074  Sum_probs=53.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC--CCCCCCccc-cceeEEEEEEEecCCcEEEEEEEeCCChhhhhh------ccc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG--QFDPTSKVT-VGASFLSQTIALQDSTTVKFEIWDTAGQERYAA------LAP  101 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~--~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~  101 (202)
                      .+..-|.|+|++++|||+|+|+|++.  .+....... .+..+-........+....+.++||+|......      ...
T Consensus         5 ~~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~~~~~~~~   84 (224)
T cd01851           5 FPVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGEFEDDARL   84 (224)
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccCCCcceEEEEecCCcCccccCchhhhhHH
Confidence            34567889999999999999999997  543332211 111111111111112236899999999653221      122


Q ss_pred             ccccC--ccEEEEEEeCCCh
Q 028884          102 LYYRG--AAVAVVVYDITSP  119 (202)
Q Consensus       102 ~~~~~--~d~~i~v~d~~~~  119 (202)
                      ..+..  +|++|+..+....
T Consensus        85 ~~l~~llss~~i~n~~~~~~  104 (224)
T cd01851          85 FALATLLSSVLIYNSWETIL  104 (224)
T ss_pred             HHHHHHHhCEEEEeccCccc
Confidence            22333  7899988887754

Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein

>cd01856 YlqF YlqF

Probab=98.58  E-value=1.9e-07  Score=66.33  Aligned_cols=98  Identities=21%  Similarity=0.217  Sum_probs=63.5

Q ss_pred             CCChh-hhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH
Q 028884           90 TAGQE-RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK  168 (202)
Q Consensus        90 ~~G~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~  168 (202)
                      .||+- +.-......++.+|++++|+|++++..... ..++..+     .++|+++|+||+|+.+...  .....++...
T Consensus         2 ~~~~~~~~~~~~~~~i~~aD~il~v~D~~~~~~~~~-~~i~~~~-----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~   73 (171)
T cd01856           2 FPGHMAKALRQIKEKLKLVDLVIEVRDARIPLSSRN-PLLEKIL-----GNKPRIIVLNKADLADPKK--TKKWLKYFES   73 (171)
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeccCccCcCC-hhhHhHh-----cCCCEEEEEehhhcCChHH--HHHHHHHHHh
Confidence            35543 233445667888999999999987643211 1122211     2478999999999854311  1122233333


Q ss_pred             cCCeEEEeccCCCCCHHHHHHHHHHHc
Q 028884          169 NGMFFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       169 ~~~~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      ....++.+|++++.|++++.+.+.+.+
T Consensus        74 ~~~~vi~iSa~~~~gi~~L~~~l~~~l  100 (171)
T cd01856          74 KGEKVLFVNAKSGKGVKKLLKAAKKLL  100 (171)
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHH
Confidence            455689999999999999999998865

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.

>cd01856 YlqF YlqF

Probab=98.56  E-value=2.7e-07  Score=65.64  Aligned_cols=58  Identities=21%  Similarity=0.255  Sum_probs=39.2

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      ...++++++|.+|+|||||+|++.+..+..... ..+.......+.+.    ..+.++||||.
T Consensus       113 ~~~~~~~~~G~~~vGKstlin~l~~~~~~~~~~-~~~~T~~~~~~~~~----~~~~~iDtpG~  170 (171)
T cd01856         113 PRGIRAMVVGIPNVGKSTLINRLRGKKVAKVGN-KPGVTKGIQWIKIS----PGIYLLDTPGI  170 (171)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCceeecC-CCCEEeeeEEEEec----CCEEEEECCCC
Confidence            345899999999999999999999876532222 22222323333332    25789999994

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.

>cd01855 YqeH YqeH

Probab=98.55  E-value=1.9e-07  Score=67.58  Aligned_cols=57  Identities=21%  Similarity=0.333  Sum_probs=36.7

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCC-------CCccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDP-------TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      ..+++++|.+|+|||||+|+|.+.....       ......++......+....    .+.++||||.
T Consensus       127 ~~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~----~~~~~DtPG~  190 (190)
T cd01855         127 GGDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPLGN----GKKLYDTPGI  190 (190)
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEecCC----CCEEEeCcCC
Confidence            4689999999999999999999854311       1111122333333333322    4789999993

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.54  E-value=3e-07  Score=70.39  Aligned_cols=58  Identities=28%  Similarity=0.386  Sum_probs=39.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      ...++++|+|.||+|||||+|+|.+......... .+.+.....+.+..    .+.++||||.
T Consensus       116 ~~~~~~~~vG~~nvGKSslin~l~~~~~~~~~~~-~g~T~~~~~~~~~~----~~~l~DtPG~  173 (276)
T TIGR03596       116 NRPIRAMIVGIPNVGKSTLINRLAGKKVAKVGNR-PGVTKGQQWIKLSD----GLELLDTPGI  173 (276)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCccccCCC-CCeecceEEEEeCC----CEEEEECCCc
Confidence            3578999999999999999999998664333322 22222222333321    4789999996

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=98.53  E-value=1.4e-07  Score=74.03  Aligned_cols=119  Identities=16%  Similarity=0.155  Sum_probs=83.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC--------CCCCCCc--------cccceeEEEEEEEecCCcEEEEEEEeCCChh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG--------QFDPTSK--------VTVGASFLSQTIALQDSTTVKFEIWDTAGQE   94 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~--------~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   94 (202)
                      ...-+|.|+.+..+||||.-++++.-        ..+....        ...+..+....+..+... +++.++||||+.
T Consensus        35 akirnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fdwkg-~rinlidtpghv  113 (753)
T KOG0464|consen   35 AKIRNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFDWKG-HRINLIDTPGHV  113 (753)
T ss_pred             hhhhcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeeccccc-ceEeeecCCCcc
Confidence            34568899999999999999988652        1111111        111222323333333333 689999999999


Q ss_pred             hhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884           95 RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus        95 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                      .|+-..+.+++.-|+++.|||.+.+-..+.+.-|    ++....++|-+.++||+|....
T Consensus       114 df~leverclrvldgavav~dasagve~qtltvw----rqadk~~ip~~~finkmdk~~a  169 (753)
T KOG0464|consen  114 DFRLEVERCLRVLDGAVAVFDASAGVEAQTLTVW----RQADKFKIPAHCFINKMDKLAA  169 (753)
T ss_pred             eEEEEHHHHHHHhcCeEEEEeccCCcccceeeee----hhccccCCchhhhhhhhhhhhh
Confidence            9999999999999999999999987555555555    4445678999999999997543

>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]

Probab=98.53  E-value=4.1e-07  Score=67.35  Aligned_cols=116  Identities=18%  Similarity=0.198  Sum_probs=76.2

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChh-------HHHHHHHHHHHHHH---c-CCCCCeEEEEEeCCCC
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD-------SFNKAQYWVKELQK---H-GSPDIVMALVGNKADL  151 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~-------s~~~~~~~~~~i~~---~-~~~~~p~ivv~nK~D~  151 (202)
                      +.|+.+|.+|+..-+..|..++...-++|+|+..+...       +...+++-+..++.   . -...+.+|+++||.|+
T Consensus       202 v~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tisvIlFLNKqDl  281 (379)
T KOG0099|consen  202 VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTISVILFLNKQDL  281 (379)
T ss_pred             cceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhheeEEecHHHH
Confidence            67999999999999999999999999999999887532       22233333333222   1 1235679999999997


Q ss_pred             CCC------------------------------CCCChHHHHHHHHH-------------cCCeEEEeccCCCCCHHHHH
Q 028884          152 HEK------------------------------REVPAQDGIEYAEK-------------NGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       152 ~~~------------------------------~~~~~~~~~~~~~~-------------~~~~~~~~s~~~~~~i~~~~  188 (202)
                      ..+                              +......+..+.+.             +-|-+.++.|.+.+++..+|
T Consensus       282 laeKi~Agk~~i~dyFpEf~~y~~p~da~~es~~d~~v~raK~fird~FlRiSta~~Dg~h~CYpHFTcAvDTenIrrVF  361 (379)
T KOG0099|consen  282 LAEKILAGKSKIEDYFPEFARYTTPEDATPESGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVF  361 (379)
T ss_pred             HHHHHHcchhhHHHhChHHhccCCccccCCCCCCChhhHHHHHhhhhhHhhhccccCCCceecccceeEeechHHHHHHH
Confidence            421                              01111111112211             12345678899999999999


Q ss_pred             HHHHHHcCCC
Q 028884          189 EEIAKRLPRP  198 (202)
Q Consensus       189 ~~l~~~i~~~  198 (202)
                      +.....|.+-
T Consensus       362 nDcrdiIqr~  371 (379)
T KOG0099|consen  362 NDCRDIIQRM  371 (379)
T ss_pred             HHHHHHHHHH
Confidence            9987776544

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.53  E-value=4.4e-07  Score=69.84  Aligned_cols=59  Identities=25%  Similarity=0.359  Sum_probs=39.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE   94 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   94 (202)
                      ...++++|+|.||+|||||+|+|.+........ ..+.+.....+...  .  .+.++||||..
T Consensus       119 ~~~~~~~~~G~pnvGKSsliN~l~~~~~~~~~~-~~g~T~~~~~~~~~--~--~~~l~DtPGi~  177 (287)
T PRK09563        119 PRAIRAMIIGIPNVGKSTLINRLAGKKIAKTGN-RPGVTKAQQWIKLG--K--GLELLDTPGIL  177 (287)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhcCCccccCC-CCCeEEEEEEEEeC--C--cEEEEECCCcC
Confidence            456899999999999999999999876533322 22222222223322  1  47899999963

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=98.52  E-value=1.4e-07  Score=65.76  Aligned_cols=60  Identities=28%  Similarity=0.319  Sum_probs=33.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCc------cccceeEEEEEEEecCCcEEEEEEEeCCChhhhh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSK------VTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA   97 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   97 (202)
                      -.++++|++|+|||||||.|.+........      ....+......+..+.    ...++||||...+.
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l~~----g~~iIDTPGf~~~~  101 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPLPD----GGYIIDTPGFRSFG  101 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTSS----S--------------SEEEEEETT----SEEEECSHHHHT--
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEecCC----CcEEEECCCCCccc
Confidence            478899999999999999999864222211      1111112222333322    24788999976543

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.50  E-value=1.4e-05  Score=55.23  Aligned_cols=148  Identities=20%  Similarity=0.282  Sum_probs=80.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCC-C------------------
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA-G------------------   92 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~-G------------------   92 (202)
                      ..++|.|.|+||+||||++.++........+.  .+.-+ ...+. .++..+-|.++|.. |                  
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~L~~~g~k--vgGf~-t~EVR-~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY   79 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEKLREKGYK--VGGFI-TPEVR-EGGKRIGFKIVDLATGEEGILARVGFSRPRVGKY   79 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHHHhcCce--eeeEE-eeeee-cCCeEeeeEEEEccCCceEEEEEcCCCCcccceE
Confidence            46899999999999999998887532211111  11111 11111 23444555555654 2                  


Q ss_pred             ------hh-hhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHH
Q 028884           93 ------QE-RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEY  165 (202)
Q Consensus        93 ------~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~  165 (202)
                            .+ ......+..++.+|++  ++|---+..+. .+++.+.+...-..++|++.++.+.+..+        ..+.
T Consensus        80 ~V~v~~le~i~~~al~rA~~~aDvI--IIDEIGpMElk-s~~f~~~ve~vl~~~kpliatlHrrsr~P--------~v~~  148 (179)
T COG1618          80 GVNVEGLEEIAIPALRRALEEADVI--IIDEIGPMELK-SKKFREAVEEVLKSGKPLIATLHRRSRHP--------LVQR  148 (179)
T ss_pred             EeeHHHHHHHhHHHHHHHhhcCCEE--EEecccchhhc-cHHHHHHHHHHhcCCCcEEEEEecccCCh--------HHHH
Confidence                  11 0111223334446654  45655553222 24455555555456788888888776321        2223


Q ss_pred             HHHcCCeEEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          166 AEKNGMFFIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       166 ~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      .+..+.-++.   .+..|-+.+++.+.+.+..
T Consensus       149 ik~~~~v~v~---lt~~NR~~i~~~Il~~L~~  177 (179)
T COG1618         149 IKKLGGVYVF---LTPENRNRILNEILSVLKG  177 (179)
T ss_pred             hhhcCCEEEE---EccchhhHHHHHHHHHhcc
Confidence            3344444443   5666666888888887654

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.50  E-value=3.3e-07  Score=63.07  Aligned_cols=76  Identities=26%  Similarity=0.311  Sum_probs=51.6

Q ss_pred             ccccCccEEEEEEeCCChhHHH--HHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccC
Q 028884          102 LYYRGAAVAVVVYDITSPDSFN--KAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAK  179 (202)
Q Consensus       102 ~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~  179 (202)
                      ..+..+|++++|+|+.++.+..  .+.+|+..   . ..++|+++|+||+|+.++..  .....+.....+..++++|++
T Consensus         7 ~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~---~-~~~k~~iivlNK~DL~~~~~--~~~~~~~~~~~~~~ii~iSa~   80 (141)
T cd01857           7 RVVERSDIVVQIVDARNPLLFRPPDLERYVKE---V-DPRKKNILLLNKADLLTEEQ--RKAWAEYFKKEGIVVVFFSAL   80 (141)
T ss_pred             HHHhhCCEEEEEEEccCCcccCCHHHHHHHHh---c-cCCCcEEEEEechhcCCHHH--HHHHHHHHHhcCCeEEEEEec
Confidence            3467799999999999875433  33344332   2 24789999999999854321  223444555566789999999


Q ss_pred             CCCC
Q 028884          180 TADN  183 (202)
Q Consensus       180 ~~~~  183 (202)
                      ++.+
T Consensus        81 ~~~~   84 (141)
T cd01857          81 KENA   84 (141)
T ss_pred             CCCc
Confidence            8764

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.48  E-value=4.2e-07  Score=69.60  Aligned_cols=99  Identities=19%  Similarity=0.173  Sum_probs=64.5

Q ss_pred             CChhh-hhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc
Q 028884           91 AGQER-YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN  169 (202)
Q Consensus        91 ~G~~~-~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~  169 (202)
                      |||-. ........+..+|++++|+|+..+.+... ..+.+.+     .++|+++|+||+|+.+...  ...........
T Consensus         5 pgHm~k~~~~~~~~l~~aDvVl~V~Dar~p~~~~~-~~i~~~l-----~~kp~IiVlNK~DL~~~~~--~~~~~~~~~~~   76 (276)
T TIGR03596         5 PGHMAKARREIKEKLKLVDVVIEVLDARIPLSSRN-PMIDEIR-----GNKPRLIVLNKADLADPAV--TKQWLKYFEEK   76 (276)
T ss_pred             hHHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCCCC-hhHHHHH-----CCCCEEEEEEccccCCHHH--HHHHHHHHHHc
Confidence            55542 22345566888999999999987743221 1111112     2578999999999854311  12222223334


Q ss_pred             CCeEEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          170 GMFFIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       170 ~~~~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      +.+++.+|++++.|+.++.+.+.+.+.+
T Consensus        77 ~~~vi~iSa~~~~gi~~L~~~i~~~~~~  104 (276)
T TIGR03596        77 GIKALAINAKKGKGVKKIIKAAKKLLKE  104 (276)
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHHHH
Confidence            5678999999999999999998877654

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.

>cd01859 MJ1464 MJ1464

Probab=98.47  E-value=6.8e-07  Score=62.49  Aligned_cols=56  Identities=25%  Similarity=0.259  Sum_probs=37.1

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG   92 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   92 (202)
                      ...+++++|.+++|||||+|++.+...... .++.+.......+.. +   ..+.+|||||
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~~~~~-~~~~~~t~~~~~~~~-~---~~~~~~DtpG  155 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRHSAST-SPSPGYTKGEQLVKI-T---SKIYLLDTPG  155 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcccc-CCCCCeeeeeEEEEc-C---CCEEEEECcC
Confidence            457899999999999999999997553222 223333222222222 1   2589999999

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.

>TIGR00092 GTP-binding protein YchF

Probab=98.47  E-value=5.8e-07  Score=70.72  Aligned_cols=84  Identities=14%  Similarity=0.014  Sum_probs=56.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCC-CCCCccccceeEEEEEEEecCC--------------cEEEEEEEeCCChhh---
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQF-DPTSKVTVGASFLSQTIALQDS--------------TTVKFEIWDTAGQER---   95 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~i~D~~G~~~---   95 (202)
                      +++.++|.|++|||||.+.|++... .....+..+.......+.+++.              ....+.++|.||...   
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs   82 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGAS   82 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchh
Confidence            7899999999999999999999875 3333333333333333443332              124689999999543   


Q ss_pred             ----hhhcccccccCccEEEEEEeCC
Q 028884           96 ----YAALAPLYYRGAAVAVVVYDIT  117 (202)
Q Consensus        96 ----~~~~~~~~~~~~d~~i~v~d~~  117 (202)
                          ........++.+|+++.|++..
T Consensus        83 ~g~Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        83 KGEGLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             cccCcchHHHHHHHhCCEEEEEEeCC
Confidence                1123344578899999999974

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.46  E-value=7e-07  Score=62.41  Aligned_cols=57  Identities=21%  Similarity=0.271  Sum_probs=38.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc-cccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK-VTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      ....+++++|.+|+|||||+|.+.+........ +..+...  ......    ..+.++||||.
T Consensus        98 ~~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~--~~~~~~----~~~~liDtPG~  155 (155)
T cd01849          98 KKSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQ--QEVKLD----NKIKLLDTPGI  155 (155)
T ss_pred             ccCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccce--EEEEec----CCEEEEECCCC
Confidence            356889999999999999999999865322222 2222222  222222    25899999993

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.

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.43  E-value=6.8e-07  Score=69.77  Aligned_cols=58  Identities=28%  Similarity=0.377  Sum_probs=41.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      ...+++.|+|-|++|||||||+|.+........ ..+.+.....+....    .+.++||||.
T Consensus       130 ~~~~~v~vvG~PNVGKSslIN~L~~k~~~~~s~-~PG~Tk~~q~i~~~~----~i~LlDtPGi  187 (322)
T COG1161         130 KRKIRVGVVGYPNVGKSTLINRLLGKKVAKTSN-RPGTTKGIQWIKLDD----GIYLLDTPGI  187 (322)
T ss_pred             ccceEEEEEcCCCCcHHHHHHHHhcccceeeCC-CCceecceEEEEcCC----CeEEecCCCc
Confidence            456889999999999999999999977633332 223333344444433    3899999994

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.42  E-value=2.7e-06  Score=59.70  Aligned_cols=21  Identities=29%  Similarity=0.419  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +++.|..|+|||||++++...
T Consensus         3 ~~l~G~~GsGKTtl~~~l~~~   23 (158)
T cd03112           3 TVLTGFLGAGKTTLLNHILTE   23 (158)
T ss_pred             EEEEECCCCCHHHHHHHHHhc
Confidence            679999999999999999875

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>PRK12288 GTPase RsgA; Reviewed

Probab=98.41  E-value=6e-07  Score=70.63  Aligned_cols=59  Identities=17%  Similarity=0.303  Sum_probs=36.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccc------cceeEEEEEEEecCCcEEEEEEEeCCChhhhh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVT------VGASFLSQTIALQDSTTVKFEIWDTAGQERYA   97 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   97 (202)
                      -++|+|.+|+|||||||+|++..........      -.+......+.+..+.    .++||||..++.
T Consensus       207 i~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~~----~liDTPGir~~~  271 (347)
T PRK12288        207 ISIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHGG----DLIDSPGVREFG  271 (347)
T ss_pred             CEEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCCC----EEEECCCCCccc
Confidence            3789999999999999999986533222211      1122223334443332    489999976543

>PRK01889 GTPase RsgA; Reviewed

Probab=98.40  E-value=1.4e-06  Score=68.92  Aligned_cols=83  Identities=16%  Similarity=0.165  Sum_probs=60.0

Q ss_pred             ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH-HcCCeEEEeccCCCC
Q 028884          104 YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAE-KNGMFFIETSAKTAD  182 (202)
Q Consensus       104 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~s~~~~~  182 (202)
                      ..++|.+++|+++..+.....+..++..+...   +++.+||+||+|+.+...   .....+.. ..+.+++.+|++++.
T Consensus       110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~~---~i~piIVLNK~DL~~~~~---~~~~~~~~~~~g~~Vi~vSa~~g~  183 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIERYLALAWES---GAEPVIVLTKADLCEDAE---EKIAEVEALAPGVPVLAVSALDGE  183 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHHHHHHHHHHc---CCCEEEEEEChhcCCCHH---HHHHHHHHhCCCCcEEEEECCCCc
Confidence            57899999999997655555667776666654   567899999999975311   11112221 346789999999999


Q ss_pred             CHHHHHHHHH
Q 028884          183 NINQLFEEIA  192 (202)
Q Consensus       183 ~i~~~~~~l~  192 (202)
                      |++++.++|.
T Consensus       184 gl~~L~~~L~  193 (356)
T PRK01889        184 GLDVLAAWLS  193 (356)
T ss_pred             cHHHHHHHhh
Confidence            9999888874

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.40  E-value=8.1e-07  Score=80.21  Aligned_cols=116  Identities=20%  Similarity=0.170  Sum_probs=69.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCc--c--ccce-eEEEEEEEecCCcEEEEEEEeCCChh--------hhhhcc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSK--V--TVGA-SFLSQTIALQDSTTVKFEIWDTAGQE--------RYAALA  100 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~--~--~~~~-~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~  100 (202)
                      .=.+|+|++|+||||+|.+- +..++....  .  ..+. ..........+    +-.++||+|.-        .....|
T Consensus       112 PWYlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~~c~wwf~~----~avliDtaG~y~~~~~~~~~~~~~W  186 (1169)
T TIGR03348       112 PWYLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTRNCDWWFTD----EAVLIDTAGRYTTQDSDPEEDAAAW  186 (1169)
T ss_pred             CCEEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCcccceEecC----CEEEEcCCCccccCCCcccccHHHH
Confidence            45689999999999999876 333322110  0  0000 01111111112    45699999921        112223


Q ss_pred             cccc---------cCccEEEEEEeCCCh-----hH----HHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884          101 PLYY---------RGAAVAVVVYDITSP-----DS----FNKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus       101 ~~~~---------~~~d~~i~v~d~~~~-----~s----~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                      ..++         +-.+++|+++|+.+-     ..    -..++..+..+........|++|++||+|+...
T Consensus       187 ~~fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll~G  258 (1169)
T TIGR03348       187 LGFLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLLAG  258 (1169)
T ss_pred             HHHHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhhcC
Confidence            2222         247999999998642     11    134566677777776778999999999998754

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=98.38  E-value=4.1e-06  Score=65.25  Aligned_cols=161  Identities=13%  Similarity=0.161  Sum_probs=90.5

Q ss_pred             CCCCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC------------------ccccceeEEEE------------
Q 028884           24 AGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS------------------KVTVGASFLSQ------------   73 (202)
Q Consensus        24 ~~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~------------------~~~~~~~~~~~------------   73 (202)
                      ....+...-+++|+|+|...+|||||+--|..+..+...                  ....+.++--.            
T Consensus       124 k~~~~~DF~E~RVAVVGNVDAGKSTLLGVLTHgeLDnGRG~ARqkLFRHKHEiESGRTSSVGNDILGFD~~GNvVNKPD~  203 (641)
T KOG0463|consen  124 KPPTEKDFIEARVAVVGNVDAGKSTLLGVLTHGELDNGRGAARQKLFRHKHEIESGRTSSVGNDILGFDVHGNVVNKPDP  203 (641)
T ss_pred             CCCCCccceeEEEEEEecccCCcceeEeeeeecccccCccHHHHHHhhhhhhcccCccccccccceeeccccccccCCCC
Confidence            334455566899999999999999999766554321110                  01111111000            


Q ss_pred             ------EEEecCCcEEEEEEEeCCChhhhhhccccccc--CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEE
Q 028884           74 ------TIALQDSTTVKFEIWDTAGQERYAALAPLYYR--GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALV  145 (202)
Q Consensus        74 ------~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv  145 (202)
                            -+.+..+..-.+.|+|..|+++|-.....-..  ..|...+++-++... .-..++.+-...   ..++|+++|
T Consensus       204 Hg~~LdWvkIce~saKviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaGI-iGmTKEHLgLAL---aL~VPVfvV  279 (641)
T KOG0463|consen  204 HGHNLDWVKICEDSAKVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAGI-IGMTKEHLGLAL---ALHVPVFVV  279 (641)
T ss_pred             CCCcccceeeccccceeEEEEeccchhhhhheeeeccccCCCCceEEEecccccc-eeccHHhhhhhh---hhcCcEEEE
Confidence                  01122222245789999999998665544333  247777777776541 111133333323   237889999


Q ss_pred             EeCCCCCCCCCCChH--HHHHHHH--------------------------HcCCeEEEeccCCCCCHHHHH
Q 028884          146 GNKADLHEKREVPAQ--DGIEYAE--------------------------KNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       146 ~nK~D~~~~~~~~~~--~~~~~~~--------------------------~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      ++|+|........+.  ....+.+                          +.-|++|.+|..+|.|+.-+.
T Consensus       280 VTKIDMCPANiLqEtmKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LLk  350 (641)
T KOG0463|consen  280 VTKIDMCPANILQETMKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLLK  350 (641)
T ss_pred             EEeeccCcHHHHHHHHHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHHHH
Confidence            999997553221110  1111111                          122678999999999987543

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.37  E-value=1.1e-06  Score=68.30  Aligned_cols=92  Identities=17%  Similarity=0.195  Sum_probs=54.4

Q ss_pred             EEEEEEeCCChhh--------hhhccc---cc-ccCccEEEEEEeCCCh-hHHHHHHHHHHHHHHcCCCCCeEEEEEeCC
Q 028884           83 VKFEIWDTAGQER--------YAALAP---LY-YRGAAVAVVVYDITSP-DSFNKAQYWVKELQKHGSPDIVMALVGNKA  149 (202)
Q Consensus        83 ~~~~i~D~~G~~~--------~~~~~~---~~-~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~  149 (202)
                      +.+.++||||...        ......   .. -...+..++|+|++.+ +.+.+...+.+.+       .+.-+|+||.
T Consensus       197 ~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~~a~~f~~~~-------~~~giIlTKl  269 (318)
T PRK10416        197 IDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNALSQAKAFHEAV-------GLTGIILTKL  269 (318)
T ss_pred             CCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHHHHHHHHHhhC-------CCCEEEEECC
Confidence            6899999999532        111111   11 1246788999999965 2333333222111       2357889999


Q ss_pred             CCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 028884          150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQL  187 (202)
Q Consensus       150 D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~  187 (202)
                      |....    .-.+.......+.|+..++  +|++++++
T Consensus       270 D~t~~----~G~~l~~~~~~~~Pi~~v~--~Gq~~~Dl  301 (318)
T PRK10416        270 DGTAK----GGVVFAIADELGIPIKFIG--VGEGIDDL  301 (318)
T ss_pred             CCCCC----ccHHHHHHHHHCCCEEEEe--CCCChhhC
Confidence            94332    3345555667788888887  66666554

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.34  E-value=1.2e-06  Score=67.36  Aligned_cols=99  Identities=20%  Similarity=0.221  Sum_probs=64.3

Q ss_pred             CCChhhh-hhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH
Q 028884           90 TAGQERY-AALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK  168 (202)
Q Consensus        90 ~~G~~~~-~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~  168 (202)
                      .|||-.- .......+..+|++|+|+|+.++.+...  .++....    .++|+++|+||+|+.+...  ......+...
T Consensus         7 fpgHm~k~~~~l~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~~----~~kp~iiVlNK~DL~~~~~--~~~~~~~~~~   78 (287)
T PRK09563          7 FPGHMAKARREIKENLKLVDVVIEVLDARIPLSSEN--PMIDKII----GNKPRLLILNKSDLADPEV--TKKWIEYFEE   78 (287)
T ss_pred             cHHHHHHHHHHHHHHhhhCCEEEEEEECCCCCCCCC--hhHHHHh----CCCCEEEEEEchhcCCHHH--HHHHHHHHHH
Confidence            4665432 2344556788999999999987743221  1222221    1578999999999854211  1222222334


Q ss_pred             cCCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          169 NGMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       169 ~~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      .+.+++.+|++++.|+.++.+.+.+.+.
T Consensus        79 ~~~~vi~vSa~~~~gi~~L~~~l~~~l~  106 (287)
T PRK09563         79 QGIKALAINAKKGQGVKKILKAAKKLLK  106 (287)
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHHH
Confidence            4567899999999999999998877654

>PRK13796 GTPase YqeH; Provisional

Probab=98.33  E-value=5.3e-06  Score=65.96  Aligned_cols=94  Identities=29%  Similarity=0.312  Sum_probs=60.6

Q ss_pred             hhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHH----HHHHHcC
Q 028884           95 RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGI----EYAEKNG  170 (202)
Q Consensus        95 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~----~~~~~~~  170 (202)
                      .|...........+++++|+|+.+..     ..|...+.+.. .+.|+++|+||+|+.... ...+...    .+++..+
T Consensus        58 ~~~~~l~~i~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~-~~kpviLViNK~DLl~~~-~~~~~i~~~l~~~~k~~g  130 (365)
T PRK13796         58 DFLKLLNGIGDSDALVVNVVDIFDFN-----GSWIPGLHRFV-GNNPVLLVGNKADLLPKS-VKKNKVKNWLRQEAKELG  130 (365)
T ss_pred             HHHHHHHhhcccCcEEEEEEECccCC-----CchhHHHHHHh-CCCCEEEEEEchhhCCCc-cCHHHHHHHHHHHHHhcC
Confidence            44444444333334899999998742     22333444332 267899999999996532 2222332    2344555


Q ss_pred             C---eEEEeccCCCCCHHHHHHHHHHHc
Q 028884          171 M---FFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       171 ~---~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      +   .++.+||+++.|++++++.|.+..
T Consensus       131 ~~~~~v~~vSAk~g~gI~eL~~~I~~~~  158 (365)
T PRK13796        131 LRPVDVVLISAQKGHGIDELLEAIEKYR  158 (365)
T ss_pred             CCcCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            5   589999999999999999998764

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.32  E-value=4.3e-06  Score=63.77  Aligned_cols=92  Identities=15%  Similarity=0.127  Sum_probs=54.8

Q ss_pred             EEEEEEeCCChhhhhhc--------cc----ccccCccEEEEEEeCCCh-hHHHHHHHHHHHHHHcCCCCCeEEEEEeCC
Q 028884           83 VKFEIWDTAGQERYAAL--------AP----LYYRGAAVAVVVYDITSP-DSFNKAQYWVKELQKHGSPDIVMALVGNKA  149 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~--------~~----~~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~  149 (202)
                      +.+.++||+|.......        ..    ..-...|.+++|+|++.+ +.+.....+.    +..   .+.-+|+||.
T Consensus       155 ~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~f~----~~~---~~~g~IlTKl  227 (272)
T TIGR00064       155 IDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQNALEQAKVFN----EAV---GLTGIILTKL  227 (272)
T ss_pred             CCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHHHHHHHHHHH----hhC---CCCEEEEEcc
Confidence            68999999996432211        11    112247899999999864 2333333322    211   1357789999


Q ss_pred             CCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 028884          150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQL  187 (202)
Q Consensus       150 D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~  187 (202)
                      |....    .-.+.......+.|+..++  +|++++++
T Consensus       228 De~~~----~G~~l~~~~~~~~Pi~~~~--~Gq~~~dl  259 (272)
T TIGR00064       228 DGTAK----GGIILSIAYELKLPIKFIG--VGEKIDDL  259 (272)
T ss_pred             CCCCC----ccHHHHHHHHHCcCEEEEe--CCCChHhC
Confidence            95332    2344555556678887777  66766554

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.

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.32  E-value=1.8e-06  Score=66.14  Aligned_cols=87  Identities=15%  Similarity=0.121  Sum_probs=59.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCC--------------cEEEEEEEeCCChhh-
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDS--------------TTVKFEIWDTAGQER-   95 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~i~D~~G~~~-   95 (202)
                      .+.++|.+||.|++|||||.|.|......+...|-.+.+.....+.....              ....+.++|+.|.-. 
T Consensus        18 ~~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkG   97 (391)
T KOG1491|consen   18 GNNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKG   97 (391)
T ss_pred             CCcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccC
Confidence            46799999999999999999999998776555555555554444443321              235789999998432 


Q ss_pred             ------hhhcccccccCccEEEEEEeCC
Q 028884           96 ------YAALAPLYYRGAAVAVVVYDIT  117 (202)
Q Consensus        96 ------~~~~~~~~~~~~d~~i~v~d~~  117 (202)
                            ..-.....++.+|+++-|++..
T Consensus        98 As~G~GLGN~FLs~iR~vDaifhVVr~f  125 (391)
T KOG1491|consen   98 ASAGEGLGNKFLSHIRHVDAIFHVVRAF  125 (391)
T ss_pred             cccCcCchHHHHHhhhhccceeEEEEec
Confidence                  1122233466788887777653

>PRK12289 GTPase RsgA; Reviewed

Probab=98.30  E-value=1.4e-06  Score=68.66  Aligned_cols=56  Identities=27%  Similarity=0.286  Sum_probs=34.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCcccc------ceeEEEEEEEecCCcEEEEEEEeCCChh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTV------GASFLSQTIALQDSTTVKFEIWDTAGQE   94 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~i~D~~G~~   94 (202)
                      .++|+|.+|+|||||||.|.+...........      .+......+...++.    .++||||..
T Consensus       174 i~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~l~~g~----~liDTPG~~  235 (352)
T PRK12289        174 ITVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELFELPNGG----LLADTPGFN  235 (352)
T ss_pred             eEEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeEEEECCCCc----EEEeCCCcc
Confidence            37999999999999999999764332222111      122223334443332    689999943

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.30  E-value=1.3e-06  Score=66.43  Aligned_cols=59  Identities=25%  Similarity=0.235  Sum_probs=38.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCC------CCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQF------DPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA   97 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   97 (202)
                      ..+++|.+|+|||||+|+|.....      .......-.+......+..+++.    .++||||..++.
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG----~iiDTPGf~~~~  230 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGGG----WIIDTPGFRSLG  230 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCCC----EEEeCCCCCccC
Confidence            678999999999999999987432      22222222333334445554444    578999976544

>PRK14974 cell division protein FtsY; Provisional

Probab=98.30  E-value=8.3e-07  Score=69.40  Aligned_cols=93  Identities=14%  Similarity=0.142  Sum_probs=54.6

Q ss_pred             EEEEEEeCCChhhhh----hccccc--ccCccEEEEEEeCCChh-HHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCC
Q 028884           83 VKFEIWDTAGQERYA----ALAPLY--YRGAAVAVVVYDITSPD-SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKR  155 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~----~~~~~~--~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~  155 (202)
                      +.+.++||+|.....    ......  .-..|.+++|+|+..+. .......|...+       ..--+|+||.|.... 
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~~~a~~f~~~~-------~~~giIlTKlD~~~~-  294 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQAREFNEAV-------GIDGVILTKVDADAK-  294 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHHHHHHHHHhcC-------CCCEEEEeeecCCCC-
Confidence            469999999964311    111111  12468889999997653 223333322211       124677899996432 


Q ss_pred             CCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          156 EVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                         .-.+...+...+.|+..++  +|++++++.
T Consensus       295 ---~G~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~  322 (336)
T PRK14974        295 ---GGAALSIAYVIGKPILFLG--VGQGYDDLI  322 (336)
T ss_pred             ---ccHHHHHHHHHCcCEEEEe--CCCChhhcc
Confidence               2344555556788888776  688876654

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.23  E-value=3.1e-06  Score=63.68  Aligned_cols=57  Identities=21%  Similarity=0.192  Sum_probs=35.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCcc------ccceeEEEEEEEecCCcEEEEEEEeCCChhh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV------TVGASFLSQTIALQDSTTVKFEIWDTAGQER   95 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   95 (202)
                      ..++++|.+|+|||||||+|.+.........      ...++.....+.. .+    -.++||||...
T Consensus       121 ~~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l-~~----~~liDtPG~~~  183 (245)
T TIGR00157       121 RISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHF-HG----GLIADTPGFNE  183 (245)
T ss_pred             CEEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEc-CC----cEEEeCCCccc
Confidence            3788999999999999999998643222111      1112222223333 22    26999999754

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

>PRK13695 putative NTPase; Provisional

Probab=98.22  E-value=5.4e-05  Score=53.92  Aligned_cols=83  Identities=18%  Similarity=0.110  Sum_probs=45.4

Q ss_pred             ccccccCccEEEEEEeCCCh-hHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEecc
Q 028884          100 APLYYRGAAVAVVVYDITSP-DSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSA  178 (202)
Q Consensus       100 ~~~~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~  178 (202)
                      ....+..+++  +++|--.+ +...  ..+++.+......+.|++++.+|...       ......+....+..++.+  
T Consensus        90 ~~~~l~~~~~--lllDE~~~~e~~~--~~~~~~l~~~~~~~~~~i~v~h~~~~-------~~~~~~i~~~~~~~i~~~--  156 (174)
T PRK13695         90 LERALEEADV--IIIDEIGKMELKS--PKFVKAVEEVLDSEKPVIATLHRRSV-------HPFVQEIKSRPGGRVYEL--  156 (174)
T ss_pred             HHhccCCCCE--EEEECCCcchhhh--HHHHHHHHHHHhCCCeEEEEECchhh-------HHHHHHHhccCCcEEEEE--
Confidence            3344556676  56773111 1111  22333333332346889999987531       123444555566677776  


Q ss_pred             CCCCCHHHHHHHHHHHcC
Q 028884          179 KTADNINQLFEEIAKRLP  196 (202)
Q Consensus       179 ~~~~~i~~~~~~l~~~i~  196 (202)
                       +.+|-+++.+.+++.++
T Consensus       157 -~~~~r~~~~~~~~~~~~  173 (174)
T PRK13695        157 -TPENRDSLPFEILNRLK  173 (174)
T ss_pred             -cchhhhhHHHHHHHHHh
Confidence             45666688888887664

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=98.22  E-value=9.4e-05  Score=60.51  Aligned_cols=83  Identities=16%  Similarity=0.129  Sum_probs=53.5

Q ss_pred             EEEEEEeCCCh-------------hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCC
Q 028884           83 VKFEIWDTAGQ-------------ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKA  149 (202)
Q Consensus        83 ~~~~i~D~~G~-------------~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~  149 (202)
                      -+..++|.||.             +..-.+...|..+.+++|+|+--..-+.-.  ...-..+......+...|+|++|.
T Consensus       412 qRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSVDAER--SnVTDLVsq~DP~GrRTIfVLTKV  489 (980)
T KOG0447|consen  412 QRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVDAER--SIVTDLVSQMDPHGRRTIFVLTKV  489 (980)
T ss_pred             ceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCcchhh--hhHHHHHHhcCCCCCeeEEEEeec
Confidence            47889999992             234466788899999999997543321111  112233344444567789999999


Q ss_pred             CCCCCCCCChHHHHHHHH
Q 028884          150 DLHEKREVPAQDGIEYAE  167 (202)
Q Consensus       150 D~~~~~~~~~~~~~~~~~  167 (202)
                      |+.+........++++..
T Consensus       490 DlAEknlA~PdRI~kIle  507 (980)
T KOG0447|consen  490 DLAEKNVASPSRIQQIIE  507 (980)
T ss_pred             chhhhccCCHHHHHHHHh
Confidence            998876555555555543

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=98.18  E-value=1.2e-05  Score=56.88  Aligned_cols=136  Identities=16%  Similarity=0.267  Sum_probs=64.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeC-CCh--------------------
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDT-AGQ--------------------   93 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~-~G~--------------------   93 (202)
                      ||++.|++|+|||||+++++.........  ... +....+ ..++...-|.+.|. .|.                    
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l~~~~~~--v~G-f~t~ev-r~~g~r~GF~iv~l~~g~~~~la~~~~~~~~~vgky~v   76 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEELKKKGLP--VGG-FYTEEV-RENGRRIGFDIVDLNSGEEAILARVDFRSGPRVGKYFV   76 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHHHTCGG--EEE-EEEEEE-ETTSSEEEEEEEET-TS-EEEEEETTSS-SCECTTCEE
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhhccCCc--cce-EEeecc-cCCCceEEEEEEECcCCCccccccccccccccCCCEEE
Confidence            68999999999999999988632111111  111 111111 13444455555555 331                    


Q ss_pred             --hhhhhccccccc----CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH
Q 028884           94 --ERYAALAPLYYR----GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAE  167 (202)
Q Consensus        94 --~~~~~~~~~~~~----~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~  167 (202)
                        +.+.......++    .+|  ++++|-=-+..+. ...|.+.+...-..++|++.++.+.-       ......++..
T Consensus        77 ~~e~fe~~~~~~L~~~~~~~~--liviDEIG~mEl~-~~~F~~~v~~~l~s~~~vi~vv~~~~-------~~~~l~~i~~  146 (168)
T PF03266_consen   77 DLESFEEIGLPALRNALSSSD--LIVIDEIGKMELK-SPGFREAVEKLLDSNKPVIGVVHKRS-------DNPFLEEIKR  146 (168)
T ss_dssp             -HHHHHCCCCCCCHHHHHCCH--EEEE---STTCCC--CHHHHHHHHHHCTTSEEEEE--SS---------SCCHHHHHT
T ss_pred             cHHHHHHHHHHHHHhhcCCCC--EEEEeccchhhhc-CHHHHHHHHHHHcCCCcEEEEEecCC-------CcHHHHHHHh
Confidence              222222222222    344  6777744331111 12233334333245788888887762       1123455666


Q ss_pred             HcCCeEEEeccCCCCCH
Q 028884          168 KNGMFFIETSAKTADNI  184 (202)
Q Consensus       168 ~~~~~~~~~s~~~~~~i  184 (202)
                      ..++.++++...+.+.+
T Consensus       147 ~~~~~i~~vt~~NRd~l  163 (168)
T PF03266_consen  147 RPDVKIFEVTEENRDAL  163 (168)
T ss_dssp             TTTSEEEE--TTTCCCH
T ss_pred             CCCcEEEEeChhHHhhH
Confidence            67788888876665544

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.16  E-value=5.2e-06  Score=65.92  Aligned_cols=57  Identities=23%  Similarity=0.367  Sum_probs=35.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCC----CCccccceeEEEEEEEecCCcEEEEEEEeCCChh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDP----TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE   94 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   94 (202)
                      .++.++|.+|+|||||+|+|++.....    ......+++.....+...+    .+.++||||..
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~~~~~----~~~l~DtPG~~  215 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEIPLDD----GHSLYDTPGII  215 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEEEeCC----CCEEEECCCCC
Confidence            589999999999999999999853211    1111122222222233222    35799999954

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.

>PRK13796 GTPase YqeH; Provisional

Probab=98.15  E-value=4.8e-06  Score=66.25  Aligned_cols=57  Identities=23%  Similarity=0.334  Sum_probs=34.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCC----CccccceeEEEEEEEecCCcEEEEEEEeCCChh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPT----SKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE   94 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   94 (202)
                      .++.|+|.+|+|||||||+|........    .....+++.....+.+.++    ..++||||..
T Consensus       161 ~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~l~~~----~~l~DTPGi~  221 (365)
T PRK13796        161 RDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIPLDDG----SFLYDTPGII  221 (365)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEEcCCC----cEEEECCCcc
Confidence            4799999999999999999996431110    1111222222223333222    4799999963

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=98.13  E-value=5.3e-06  Score=60.54  Aligned_cols=116  Identities=17%  Similarity=0.212  Sum_probs=74.1

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhH----------HHHHHHHHHHHHHcC-CCCCeEEEEEeCCCC
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDS----------FNKAQYWVKELQKHG-SPDIVMALVGNKADL  151 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s----------~~~~~~~~~~i~~~~-~~~~p~ivv~nK~D~  151 (202)
                      +.+.++|.+|+..-+..|.+++.+.-.+++++.++..+.          .++....+..+...- -.+.++|+++||.|+
T Consensus       199 iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~yPWF~nssVIlFLNKkDl  278 (359)
T KOG0085|consen  199 IIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDL  278 (359)
T ss_pred             heeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhccccccCCceEEEechhhh
Confidence            567799999998888899999998888877777664321          222222222222221 125679999999998


Q ss_pred             CCC----------------CCCChHHHHHHHHHc----C-----C-eEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          152 HEK----------------REVPAQDGIEYAEKN----G-----M-FFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       152 ~~~----------------~~~~~~~~~~~~~~~----~-----~-~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      .++                .....+.++.+..+.    +     + --..+.|.+.+|+.-+|.++.+.+...
T Consensus       279 LEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKii~SHfTcATDT~NIRfVFaaVkDtiLq~  351 (359)
T KOG0085|consen  279 LEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  351 (359)
T ss_pred             hhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccceeeeeeeecccchhHHHHHHHHHHHHHHh
Confidence            653                123334444454432    1     1 124467899999999999988877543

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.11  E-value=6.5e-05  Score=55.59  Aligned_cols=157  Identities=20%  Similarity=0.317  Sum_probs=93.3

Q ss_pred             eeeEEEEcCCCC--cHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCc-E--EEEEEEeCCChhhhhhcccccccCc
Q 028884           33 RVKLVLLGDSGV--GKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDST-T--VKFEIWDTAGQERYAALAPLYYRGA  107 (202)
Q Consensus        33 ~~~i~v~G~~~~--GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~--~~~~i~D~~G~~~~~~~~~~~~~~~  107 (202)
                      ...++|+|-.|+  ||.+|+.+|....+.......-.+.+..+++  .+.+ .  +.+.+.-.-  +++.--........
T Consensus         4 rp~~lv~g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~hgwti--d~kyysadi~lcishic--de~~lpn~~~a~pl   79 (418)
T KOG4273|consen    4 RPCALVTGCSGVFSGDQLLLHRLGSEDFEDESESNDATEFHGWTI--DNKYYSADINLCISHIC--DEKFLPNAEIAEPL   79 (418)
T ss_pred             CceEEEecccccccchHHHHHHhcchhheeeccccCceeeeceEe--cceeeecceeEEeeccc--chhccCCcccccce
Confidence            357899999998  9999999999877755544433333333322  1111 0  222222211  11111111112234


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC--------------C------------------
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK--------------R------------------  155 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~--------------~------------------  155 (202)
                      -+++.+||.+....+..++.|+...... ..++ .+-++||.|....              .                  
T Consensus        80 ~a~vmvfdlse~s~l~alqdwl~htdin-sfdi-llcignkvdrvphhlahdeyrrrl~kasdpsrdl~~di~dfgiset  157 (418)
T KOG4273|consen   80 QAFVMVFDLSEKSGLDALQDWLPHTDIN-SFDI-LLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDLMIDICDFGISET  157 (418)
T ss_pred             eeEEEEEeccchhhhHHHHhhccccccc-cchh-heecccccccccchhhhhHHHHHHHhhcCcchhHhhhhhhcccccc
Confidence            5788999999998899999997643221 1121 3445789886421              0                  


Q ss_pred             ------------CCChHHHHHHHHHcCCeEEEeccCCC------------CCHHHHHHHHHHHc
Q 028884          156 ------------EVPAQDGIEYAEKNGMFFIETSAKTA------------DNINQLFEEIAKRL  195 (202)
Q Consensus       156 ------------~~~~~~~~~~~~~~~~~~~~~s~~~~------------~~i~~~~~~l~~~i  195 (202)
                                  ........+||.++++.+++.++...            .|+..+|.+|-..+
T Consensus       158 egssllgsedasldirga~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ahm  221 (418)
T KOG4273|consen  158 EGSSLLGSEDASLDIRGAALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAHM  221 (418)
T ss_pred             ccccccccccchhhHHHHHHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhcc
Confidence                        01223456788899999999887433            47888888876554

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.10  E-value=1.9e-05  Score=62.61  Aligned_cols=142  Identities=14%  Similarity=0.094  Sum_probs=69.8

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCC-C-Ccc-ccceeEE----------------EEEEEe----------cCCcE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDP-T-SKV-TVGASFL----------------SQTIAL----------QDSTT   82 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~-~~~-~~~~~~~----------------~~~~~~----------~~~~~   82 (202)
                      ..-.++++|++|+||||++..|....... . ... -++.+..                ......          ..-..
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~  215 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRN  215 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcC
Confidence            34578899999999999999887532100 0 000 0000000                000000          00112


Q ss_pred             EEEEEEeCCChhhhhh----cccc--cccCccEEEEEEeCCCh-hHHHHHHHHHHHHHHcCCCC--CeEEEEEeCCCCCC
Q 028884           83 VKFEIWDTAGQERYAA----LAPL--YYRGAAVAVVVYDITSP-DSFNKAQYWVKELQKHGSPD--IVMALVGNKADLHE  153 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~----~~~~--~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~--~p~ivv~nK~D~~~  153 (202)
                      ..+.++||+|......    ....  .....+-.++|++++.. +...++.+.+..........  -.--+|+||.|-..
T Consensus       216 ~DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi~~f~~~~~~p~~~~~~~~~~I~TKlDEt~  295 (374)
T PRK14722        216 KHMVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLDEAS  295 (374)
T ss_pred             CCEEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHHHHHHHhhcccccccCCCCEEEEeccccCC
Confidence            4789999999553221    1111  11223456888888864 33343322222221110000  12356779999432


Q ss_pred             CCCCChHHHHHHHHHcCCeEEEec
Q 028884          154 KREVPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~s  177 (202)
                          ..-.+.......+.++..++
T Consensus       296 ----~~G~~l~~~~~~~lPi~yvt  315 (374)
T PRK14722        296 ----NLGGVLDTVIRYKLPVHYVS  315 (374)
T ss_pred             ----CccHHHHHHHHHCcCeEEEe
Confidence                33455666666676655543

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.09  E-value=3.2e-05  Score=59.02  Aligned_cols=95  Identities=22%  Similarity=0.218  Sum_probs=70.9

Q ss_pred             hhcccccccCccEEEEEEeCCCh-hHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEE
Q 028884           97 AALAPLYYRGAAVAVVVYDITSP-DSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIE  175 (202)
Q Consensus        97 ~~~~~~~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  175 (202)
                      ..+.+--+.+.|-+++++.+.+| .+...+.+++-.....   ++..+|++||+|+.........+........+.+++.
T Consensus        70 n~L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~~---gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~~  146 (301)
T COG1162          70 NVLIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEAG---GIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVLF  146 (301)
T ss_pred             CceeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHHc---CCcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEEE
Confidence            34455556668888888888877 4566677776666544   5667888999999876554435566677788999999


Q ss_pred             eccCCCCCHHHHHHHHHHH
Q 028884          176 TSAKTADNINQLFEEIAKR  194 (202)
Q Consensus       176 ~s~~~~~~i~~~~~~l~~~  194 (202)
                      +|++++.++.++.+++...
T Consensus       147 ~s~~~~~~~~~l~~~l~~~  165 (301)
T COG1162         147 VSAKNGDGLEELAELLAGK  165 (301)
T ss_pred             ecCcCcccHHHHHHHhcCC
Confidence            9999999999998887654

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=98.08  E-value=6.8e-05  Score=54.45  Aligned_cols=82  Identities=16%  Similarity=0.121  Sum_probs=47.4

Q ss_pred             EEEEEEeCCChhhh--------hhcccccccCccEEEEEEeCCChh-HHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           83 VKFEIWDTAGQERY--------AALAPLYYRGAAVAVVVYDITSPD-SFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        83 ~~~~i~D~~G~~~~--------~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      .++.++||+|....        ..+....  ..+-+++|.+++... ....+..+++.+    ..   --+|+||.|...
T Consensus        84 ~D~vlIDT~Gr~~~d~~~~~el~~~~~~~--~~~~~~LVlsa~~~~~~~~~~~~~~~~~----~~---~~lIlTKlDet~  154 (196)
T PF00448_consen   84 YDLVLIDTAGRSPRDEELLEELKKLLEAL--NPDEVHLVLSATMGQEDLEQALAFYEAF----GI---DGLILTKLDETA  154 (196)
T ss_dssp             SSEEEEEE-SSSSTHHHHHHHHHHHHHHH--SSSEEEEEEEGGGGGHHHHHHHHHHHHS----ST---CEEEEESTTSSS
T ss_pred             CCEEEEecCCcchhhHHHHHHHHHHhhhc--CCccceEEEecccChHHHHHHHHHhhcc----cC---ceEEEEeecCCC
Confidence            46999999994322        1222211  467889999998763 333333333222    11   245689999432


Q ss_pred             CCCCChHHHHHHHHHcCCeEEEec
Q 028884          154 KREVPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~s  177 (202)
                          ..-.........+.|+-.++
T Consensus       155 ----~~G~~l~~~~~~~~Pi~~it  174 (196)
T PF00448_consen  155 ----RLGALLSLAYESGLPISYIT  174 (196)
T ss_dssp             ----TTHHHHHHHHHHTSEEEEEE
T ss_pred             ----CcccceeHHHHhCCCeEEEE
Confidence                33456667777788866554

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.07  E-value=3.6e-05  Score=62.04  Aligned_cols=85  Identities=15%  Similarity=0.097  Sum_probs=45.8

Q ss_pred             EEEEEEeCCChhhhh-----hcccc-cccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC
Q 028884           83 VKFEIWDTAGQERYA-----ALAPL-YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE  156 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~-----~~~~~-~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~  156 (202)
                      +.+.|+||+|.....     .+... ..-..|-+++|+|+..+..-..+   ...+...   -.+--+|+||.|....  
T Consensus       183 ~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~~---a~~F~~~---~~~~g~IlTKlD~~ar--  254 (429)
T TIGR01425       183 FDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEAQ---AKAFKDS---VDVGSVIITKLDGHAK--  254 (429)
T ss_pred             CCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHHHH---HHHHHhc---cCCcEEEEECccCCCC--
Confidence            689999999954221     11111 12246889999998765222211   1222221   1246788999996432  


Q ss_pred             CChHHHHHHHHHcCCeEEEec
Q 028884          157 VPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~~~s  177 (202)
                        .-.+.......+.|+..++
T Consensus       255 --gG~aLs~~~~t~~PI~fig  273 (429)
T TIGR01425       255 --GGGALSAVAATKSPIIFIG  273 (429)
T ss_pred             --ccHHhhhHHHHCCCeEEEc
Confidence              2223444455566655543

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.07  E-value=5e-06  Score=68.24  Aligned_cols=122  Identities=14%  Similarity=0.078  Sum_probs=79.9

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCC------------------CCCCccccceeEEEEEEEecCCcEEEEEEEe
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQF------------------DPTSKVTVGASFLSQTIALQDSTTVKFEIWD   89 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D   89 (202)
                      .+....-+|.+.-+-.+||||+-++.+...-                  .......++.......+.+  . .+++.++|
T Consensus        34 ~~~~k~RNIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~w--~-~~~iNiID  110 (721)
T KOG0465|consen   34 IPLNKIRNIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFTW--R-DYRINIID  110 (721)
T ss_pred             CchhhhcccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeeee--c-cceeEEec
Confidence            3334677888999999999999988765210                  0011111222221112222  2 27899999


Q ss_pred             CCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC
Q 028884           90 TAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE  156 (202)
Q Consensus        90 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~  156 (202)
                      |||+-.|....+..++.-|++++++|+..+-.-+...-|    ++.+.-++|.+-++||.|......
T Consensus       111 TPGHvDFT~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~----rQ~~ry~vP~i~FiNKmDRmGa~~  173 (721)
T KOG0465|consen  111 TPGHVDFTFEVERALRVLDGAVLVLDAVAGVESQTETVW----RQMKRYNVPRICFINKMDRMGASP  173 (721)
T ss_pred             CCCceeEEEEehhhhhhccCeEEEEEcccceehhhHHHH----HHHHhcCCCeEEEEehhhhcCCCh
Confidence            999999998899999999999999998876222222223    222334789999999999765443

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.05  E-value=3.3e-05  Score=57.99  Aligned_cols=65  Identities=22%  Similarity=0.410  Sum_probs=41.8

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccce--eEEEEEEEec-CCcEEEEEEEeCCC
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGA--SFLSQTIALQ-DSTTVKFEIWDTAG   92 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~--~~~~~~~~~~-~~~~~~~~i~D~~G   92 (202)
                      -.....++|+.+|.+|.|||||+++|++-.+.....+-.-.  .....++... .+-.+.+.++||.|
T Consensus        37 v~~GF~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvG  104 (406)
T KOG3859|consen   37 VSQGFCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVG  104 (406)
T ss_pred             HhcCceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecc
Confidence            34456899999999999999999999997764332211111  1111112111 23347789999999

>PRK00098 GTPase RsgA; Reviewed

Probab=98.04  E-value=1.3e-05  Score=61.98  Aligned_cols=25  Identities=36%  Similarity=0.395  Sum_probs=21.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQF   58 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~   58 (202)
                      ..++++|.+|+|||||+|.|.+...
T Consensus       165 k~~~~~G~sgvGKStlin~l~~~~~  189 (298)
T PRK00098        165 KVTVLAGQSGVGKSTLLNALAPDLE  189 (298)
T ss_pred             ceEEEECCCCCCHHHHHHHHhCCcC
Confidence            3688999999999999999998643

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.02  E-value=1.4e-05  Score=61.61  Aligned_cols=59  Identities=24%  Similarity=0.294  Sum_probs=36.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccc------cceeEEEEEEEecCCcEEEEEEEeCCChhhh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVT------VGASFLSQTIALQDSTTVKFEIWDTAGQERY   96 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   96 (202)
                      -.++++|++|+|||||+|.|.+..........      ..+......+....+    ..++||||...+
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~----~~liDtPG~~~~  226 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGG----GLLIDTPGFREF  226 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCC----CEEEECCCCCcc
Confidence            47899999999999999999985432221111      111222223333222    258999998654

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.

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=97.98  E-value=0.00017  Score=56.29  Aligned_cols=137  Identities=18%  Similarity=0.061  Sum_probs=72.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCCC-----------CCCCcc--ccceeEEEEEEEecCCc---------------------
Q 028884           36 LVLLGDSGVGKSCIVLRFVRGQF-----------DPTSKV--TVGASFLSQTIALQDST---------------------   81 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~~~-----------~~~~~~--~~~~~~~~~~~~~~~~~---------------------   81 (202)
                      .+|-|--|+|||||+++++...-           -.....  ..-.......+.+.++.                     
T Consensus         4 tvitGFLGsGKTTlL~~lL~~~~g~kiAVIVNEfGEvgID~~~~l~~~~e~~~El~nGCICCT~r~dl~~~~~~L~~~~~   83 (323)
T COG0523           4 TVITGFLGSGKTTLLNHLLANRDGKKIAVIVNEFGEVGIDGGALLSDTGEEVVELTNGCICCTVRDDLLPALERLLRRRD   83 (323)
T ss_pred             EEEeecCCCCHHHHHHHHHhccCCCcEEEEEecCccccccCCCccccCCccEEEeCCceEEEeccchhHHHHHHHHhccC
Confidence            56788999999999999997532           000001  00000111122222222                     


Q ss_pred             EEEEEEEeCCChhhh----hh-cccccc---cCccEEEEEEeCCChhHHHH-H-HHHHHHHHHcCCCCCeEEEEEeCCCC
Q 028884           82 TVKFEIWDTAGQERY----AA-LAPLYY---RGAAVAVVVYDITSPDSFNK-A-QYWVKELQKHGSPDIVMALVGNKADL  151 (202)
Q Consensus        82 ~~~~~i~D~~G~~~~----~~-~~~~~~---~~~d~~i~v~d~~~~~s~~~-~-~~~~~~i~~~~~~~~p~ivv~nK~D~  151 (202)
                      .....++++.|...-    .. .+...+   -..|+++-|+|+..-..... + ..+...+...      =+|++||.|+
T Consensus        84 ~~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia~A------D~ivlNK~Dl  157 (323)
T COG0523          84 RPDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLAFA------DVIVLNKTDL  157 (323)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHHhC------cEEEEecccC
Confidence            145678888884321    11 111111   13588999999987533221 2 2222333322      3788999999


Q ss_pred             CCCCCCChHHHHHHHHH--cCCeEEEeccCC
Q 028884          152 HEKREVPAQDGIEYAEK--NGMFFIETSAKT  180 (202)
Q Consensus       152 ~~~~~~~~~~~~~~~~~--~~~~~~~~s~~~  180 (202)
                      .....  .+...+..+.  ...+++.++...
T Consensus       158 v~~~~--l~~l~~~l~~lnp~A~i~~~~~~~  186 (323)
T COG0523         158 VDAEE--LEALEARLRKLNPRARIIETSYGD  186 (323)
T ss_pred             CCHHH--HHHHHHHHHHhCCCCeEEEccccC
Confidence            87654  3333444444  356678777633

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=97.98  E-value=2e-05  Score=61.94  Aligned_cols=158  Identities=16%  Similarity=0.123  Sum_probs=90.7

Q ss_pred             CCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCC-------------------------------CCCCccccceeEEEEE
Q 028884           26 SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQF-------------------------------DPTSKVTVGASFLSQT   74 (202)
Q Consensus        26 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-------------------------------~~~~~~~~~~~~~~~~   74 (202)
                      -+.+....++++|+|+..+||||+-..++...-                               ....+..-+.......
T Consensus        72 ~~~~pk~hvn~vfighVdagkstigg~il~ltg~Vd~Rt~ekyereake~~rEswylsW~ldtn~EeR~kgKtvEvGrA~  151 (501)
T KOG0459|consen   72 CGEYPKEHVNAVFIGHVDAGKSTIGGNILFLTGMVDKRTLEKYEREAKEKNRESWYLSWALDTNGEERDKGKTVEVGRAY  151 (501)
T ss_pred             ccCCCCCCceEEEEEEEeccccccCCeeEEEEeeecHHHHHHHHHHHHhhccccceEEEEEcCchhhhhccceeeeeeEE
Confidence            344456789999999999999998765543200                               0001111111111111


Q ss_pred             EEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChh---HHHHH---HHHHHHHHHcCCCCCeEEEEEeC
Q 028884           75 IALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD---SFNKA---QYWVKELQKHGSPDIVMALVGNK  148 (202)
Q Consensus        75 ~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~~~---~~~~~~i~~~~~~~~p~ivv~nK  148 (202)
                      +   .-...++.+.|+||+..|-.....-...||+.++|+.+...+   .|+.-   +..........  -...|+++||
T Consensus       152 F---Ete~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt~g--v~~lVv~vNK  226 (501)
T KOG0459|consen  152 F---ETENKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAG--VKHLIVLINK  226 (501)
T ss_pred             E---EecceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHhhc--cceEEEEEEe
Confidence            1   222368999999999887765555666789999999986442   23322   22222222222  2447888999


Q ss_pred             CCCCCC-CCC-Ch----HHHHHHHHH------cCCeEEEeccCCCCCHHHHH
Q 028884          149 ADLHEK-REV-PA----QDGIEYAEK------NGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       149 ~D~~~~-~~~-~~----~~~~~~~~~------~~~~~~~~s~~~~~~i~~~~  188 (202)
                      +|-+.. +.. ..    +....+.+.      ....++++|..+|.++++..
T Consensus       227 MddPtvnWs~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~  278 (501)
T KOG0459|consen  227 MDDPTVNWSNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRT  278 (501)
T ss_pred             ccCCccCcchhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhcc
Confidence            996532 111 11    112222222      23459999999999988754

>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=97.96  E-value=4e-05  Score=43.39  Aligned_cols=44  Identities=23%  Similarity=0.180  Sum_probs=30.4

Q ss_pred             CccEEEEEEeCCC--hhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCC
Q 028884          106 GAAVAVVVYDITS--PDSFNKAQYWVKELQKHGSPDIVMALVGNKAD  150 (202)
Q Consensus       106 ~~d~~i~v~d~~~--~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D  150 (202)
                      -.++++|++|++.  +.+.++....++.++..- .++|+++|+||+|
T Consensus        13 L~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F-~~~P~i~V~nK~D   58 (58)
T PF06858_consen   13 LADAILFIIDPSEQCGYSIEEQLSLFKEIKPLF-PNKPVIVVLNKID   58 (58)
T ss_dssp             T-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHT-TTS-EEEEE--TT
T ss_pred             hcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHc-CCCCEEEEEeccC
Confidence            3589999999984  567788888888888762 3799999999998

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.96  E-value=7.5e-05  Score=61.50  Aligned_cols=135  Identities=14%  Similarity=0.123  Sum_probs=70.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCC--------CCccccc-------------eeEEEEEEEe--------cCCc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDP--------TSKVTVG-------------ASFLSQTIAL--------QDST   81 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~--------~~~~~~~-------------~~~~~~~~~~--------~~~~   81 (202)
                      ...-.|+|+|++|+||||++..|...-...        ....+..             ..........        ..-.
T Consensus       348 ~~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~  427 (559)
T PRK12727        348 ERGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLR  427 (559)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhc
Confidence            345678899999999999998876521000        0000000             0000000000        0011


Q ss_pred             EEEEEEEeCCChhhhhhc-------ccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884           82 TVKFEIWDTAGQERYAAL-------APLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus        82 ~~~~~i~D~~G~~~~~~~-------~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                      .+.+.|+||+|.......       .... . ....++|++.+..  ...+...+..+...    .+.-+|+||.|... 
T Consensus       428 ~~DLVLIDTaG~s~~D~~l~eeL~~L~aa-~-~~a~lLVLpAtss--~~Dl~eii~~f~~~----~~~gvILTKlDEt~-  498 (559)
T PRK12727        428 DYKLVLIDTAGMGQRDRALAAQLNWLRAA-R-QVTSLLVLPANAH--FSDLDEVVRRFAHA----KPQGVVLTKLDETG-  498 (559)
T ss_pred             cCCEEEecCCCcchhhHHHHHHHHHHHHh-h-cCCcEEEEECCCC--hhHHHHHHHHHHhh----CCeEEEEecCcCcc-
Confidence            267999999995432111       1111 1 2345677777653  33333444443332    34678899999532 


Q ss_pred             CCCChHHHHHHHHHcCCeEEEec
Q 028884          155 REVPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~~~s  177 (202)
                         ............+.++..++
T Consensus       499 ---~lG~aLsv~~~~~LPI~yvt  518 (559)
T PRK12727        499 ---RFGSALSVVVDHQMPITWVT  518 (559)
T ss_pred             ---chhHHHHHHHHhCCCEEEEe
Confidence               33556666667777765554

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.91  E-value=7.5e-05  Score=59.41  Aligned_cols=85  Identities=9%  Similarity=0.076  Sum_probs=46.9

Q ss_pred             EEEEEEeCCChhhh-----hhccccc-ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC
Q 028884           83 VKFEIWDTAGQERY-----AALAPLY-YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE  156 (202)
Q Consensus        83 ~~~~i~D~~G~~~~-----~~~~~~~-~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~  156 (202)
                      +.+.|+||+|....     ..+.... ....+.+++|+|++..  ...+...+..+...   + .--+|+||.|-..   
T Consensus       321 ~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk--~~d~~~i~~~F~~~---~-idglI~TKLDET~---  391 (436)
T PRK11889        321 VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMK--SKDMIEIITNFKDI---H-IDGIVFTKFDETA---  391 (436)
T ss_pred             CCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccC--hHHHHHHHHHhcCC---C-CCEEEEEcccCCC---
Confidence            57999999995431     1121111 1124678888988643  22333333333322   1 2356789999543   


Q ss_pred             CChHHHHHHHHHcCCeEEEec
Q 028884          157 VPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~~~s  177 (202)
                       ..-.+...+...++|+..++
T Consensus       392 -k~G~iLni~~~~~lPIsyit  411 (436)
T PRK11889        392 -SSGELLKIPAVSSAPIVLMT  411 (436)
T ss_pred             -CccHHHHHHHHHCcCEEEEe
Confidence             23455666667777755543

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.84  E-value=5e-05  Score=67.78  Aligned_cols=114  Identities=19%  Similarity=0.154  Sum_probs=64.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCCCCCCCc---cc-cceeEEEEEEEecCCcEEEEEEEeCCChh--------hhhhcccc-
Q 028884           36 LVLLGDSGVGKSCIVLRFVRGQFDPTSK---VT-VGASFLSQTIALQDSTTVKFEIWDTAGQE--------RYAALAPL-  102 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~~~~~~~~---~~-~~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~-  102 (202)
                      -+|+|++|+||||++..-.- .++....   .. .......+....  ..  +-.++||.|.-        .-...|.. 
T Consensus       128 y~viG~pgsGKTtal~~sgl-~Fpl~~~~~~~~~~~~gT~~cdwwf--~d--eaVlIDtaGry~~q~s~~~~~~~~W~~f  202 (1188)
T COG3523         128 YMVIGPPGSGKTTALLNSGL-QFPLAEQMGALGLAGPGTRNCDWWF--TD--EAVLIDTAGRYITQDSADEVDRAEWLGF  202 (1188)
T ss_pred             eEEecCCCCCcchHHhcccc-cCcchhhhccccccCCCCcccCccc--cc--ceEEEcCCcceecccCcchhhHHHHHHH
Confidence            47999999999999854322 2211110   00 000011111111  11  46788988821        11222322 


Q ss_pred             --------cccCccEEEEEEeCCCh-----hH----HHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884          103 --------YYRGAAVAVVVYDITSP-----DS----FNKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus       103 --------~~~~~d~~i~v~d~~~~-----~s----~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                              -.+-.+++|+++|+.+-     ..    ...++.-+++++..-.-..|++|++||.|+...
T Consensus       203 L~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lTk~Dll~G  271 (1188)
T COG3523         203 LGLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLTKADLLPG  271 (1188)
T ss_pred             HHHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEeccccccc
Confidence                    23457999999998642     11    223455566666665668999999999998763

>cd03114 ArgK-like The function of this protein family is unkown

Probab=97.84  E-value=9.9e-05  Score=51.14  Aligned_cols=57  Identities=23%  Similarity=0.121  Sum_probs=35.8

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCC
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKAD  150 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D  150 (202)
                      +.+.++|++|....   ...++..+|-+|++....-.+....++-  ..+..      .=++++||.|
T Consensus        92 ~D~iiIDtaG~~~~---~~~~~~~Ad~~ivv~tpe~~D~y~~~k~--~~~~~------~~~~~~~k~~  148 (148)
T cd03114          92 FDVIIVETVGVGQS---EVDIASMADTTVVVMAPGAGDDIQAIKA--GIMEI------ADIVVVNKAD  148 (148)
T ss_pred             CCEEEEECCccChh---hhhHHHhCCEEEEEECCCchhHHHHhhh--hHhhh------cCEEEEeCCC
Confidence            67999999996422   2347778998988888774433332221  11221      1478899987

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=97.83  E-value=0.00014  Score=51.68  Aligned_cols=82  Identities=15%  Similarity=0.085  Sum_probs=44.0

Q ss_pred             EEEEEEeCCChhhhh----hccccc--ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC
Q 028884           83 VKFEIWDTAGQERYA----ALAPLY--YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE  156 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~----~~~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~  156 (202)
                      ..+.++|++|...+.    .....+  ....|.+++|+|......   ...+...+.....   ...+|.||.|..... 
T Consensus        83 ~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~---~~~~~~~~~~~~~---~~~viltk~D~~~~~-  155 (173)
T cd03115          83 FDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQD---AVNQAKAFNEALG---ITGVILTKLDGDARG-  155 (173)
T ss_pred             CCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChH---HHHHHHHHHhhCC---CCEEEEECCcCCCCc-
Confidence            468889999964221    111111  123799999999875432   2223333332222   256777999964422 


Q ss_pred             CChHHHHHHHHHcCCeEE
Q 028884          157 VPAQDGIEYAEKNGMFFI  174 (202)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~  174 (202)
                         ......+...+.|+.
T Consensus       156 ---g~~~~~~~~~~~p~~  170 (173)
T cd03115         156 ---GAALSIRAVTGKPIK  170 (173)
T ss_pred             ---chhhhhHHHHCcCeE
Confidence               223335555565543

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=97.82  E-value=6.4e-05  Score=60.83  Aligned_cols=117  Identities=21%  Similarity=0.211  Sum_probs=73.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCC------------CCCCCccc--cceeEEEEEEEe---------------cCCc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQ------------FDPTSKVT--VGASFLSQTIAL---------------QDST   81 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~------------~~~~~~~~--~~~~~~~~~~~~---------------~~~~   81 (202)
                      .+.-++-|+.+...|||||-..|....            +.......  .+..+....+..               .++.
T Consensus        17 ~NiRNmSVIAHVDHGKSTLTDsLV~kAgIis~akaGe~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d~~   96 (842)
T KOG0469|consen   17 KNIRNMSVIAHVDHGKSTLTDSLVQKAGIISAAKAGETRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGDGN   96 (842)
T ss_pred             cccccceEEEEecCCcchhhHHHHHhhceeeecccCCccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCCCc
Confidence            345678899999999999999887531            11111111  111111111111               1334


Q ss_pred             EEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCC
Q 028884           82 TVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL  151 (202)
Q Consensus        82 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~  151 (202)
                      .+.+.++|.||+..|.+.....++..|++++|+|.-++--.+.-.-..+.+..   +-+| +++.||.|.
T Consensus        97 ~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~~E---RIkP-vlv~NK~DR  162 (842)
T KOG0469|consen   97 GFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAE---RIKP-VLVMNKMDR  162 (842)
T ss_pred             ceeEEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHHHHHHHHHh---hccc-eEEeehhhH
Confidence            57899999999999999999999999999999998776333221111122222   2334 667999995

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=97.81  E-value=4.8e-05  Score=61.53  Aligned_cols=61  Identities=20%  Similarity=0.165  Sum_probs=42.3

Q ss_pred             CCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC-ccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           27 SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS-KVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        27 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      .......+.|.+||=|||||||+||.|.+.+.--.. .|..+.++....  +..    .+.+.|+||.
T Consensus       308 ~~~~~~~vtVG~VGYPNVGKSSTINaLvG~KkVsVS~TPGkTKHFQTi~--ls~----~v~LCDCPGL  369 (562)
T KOG1424|consen  308 GERYKDVVTVGFVGYPNVGKSSTINALVGRKKVSVSSTPGKTKHFQTIF--LSP----SVCLCDCPGL  369 (562)
T ss_pred             CcCCCceeEEEeecCCCCchhHHHHHHhcCceeeeecCCCCcceeEEEE--cCC----CceecCCCCc
Confidence            333444799999999999999999999998754333 344444443322  222    5789999995

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=97.76  E-value=0.00053  Score=53.60  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      =.+|.|--|+|||||||+++..
T Consensus         6 v~iltGFLGaGKTTll~~ll~~   27 (318)
T PRK11537          6 VTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_pred             EEEEEECCCCCHHHHHHHHHhc
Confidence            3568899999999999999864

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=97.74  E-value=0.00021  Score=46.27  Aligned_cols=82  Identities=13%  Similarity=0.159  Sum_probs=48.7

Q ss_pred             EEEEc-CCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           36 LVLLG-DSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        36 i~v~G-~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      |.|.| ..|+||||+...+...... ...+       ...+..  +..+.+.++|+|+.....  ....+..+|.++++.
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~~~-~~~~-------vl~~d~--d~~~d~viiD~p~~~~~~--~~~~l~~ad~viv~~   69 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAALAR-RGKR-------VLLIDL--DPQYDYIIIDTPPSLGLL--TRNALAAADLVLIPV   69 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHh-CCCc-------EEEEeC--CCCCCEEEEeCcCCCCHH--HHHHHHHCCEEEEec
Confidence            56666 6699999998776652211 1111       111111  111679999999864322  235677799999999


Q ss_pred             eCCChhHHHHHHHHHH
Q 028884          115 DITSPDSFNKAQYWVK  130 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~  130 (202)
                      +.+.. ++..+..+++
T Consensus        70 ~~~~~-s~~~~~~~~~   84 (104)
T cd02042          70 QPSPL-DLDGLEKLLE   84 (104)
T ss_pred             cCCHH-HHHHHHHHHH
Confidence            87643 4555555554

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.72  E-value=0.0011  Score=52.85  Aligned_cols=131  Identities=15%  Similarity=0.146  Sum_probs=66.7

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeE--EEE------------------EEEe---------cCCcEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASF--LSQ------------------TIAL---------QDSTTV   83 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~--~~~------------------~~~~---------~~~~~~   83 (202)
                      .-.|+++|++|+||||-+-.|-............+.-.  +++                  .+.+         ..-...
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~  282 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDC  282 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcC
Confidence            55688999999999998877765432111111111100  000                  0000         000124


Q ss_pred             EEEEEeCCChhhhh----hcccccccC--ccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC
Q 028884           84 KFEIWDTAGQERYA----ALAPLYYRG--AAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV  157 (202)
Q Consensus        84 ~~~i~D~~G~~~~~----~~~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~  157 (202)
                      ++.++||.|...+.    .....++..  ..-+.+|++++..  ...+...++.+.....    --+++||.|-..    
T Consensus       283 d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K--~~dlkei~~~f~~~~i----~~~I~TKlDET~----  352 (407)
T COG1419         283 DVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTK--YEDLKEIIKQFSLFPI----DGLIFTKLDETT----  352 (407)
T ss_pred             CEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcc--hHHHHHHHHHhccCCc----ceeEEEcccccC----
Confidence            78999999965432    222222222  3455667777765  3455555555443311    245679999322    


Q ss_pred             ChHHHHHHHHHcCCeE
Q 028884          158 PAQDGIEYAEKNGMFF  173 (202)
Q Consensus       158 ~~~~~~~~~~~~~~~~  173 (202)
                      ..-.......+.+.|+
T Consensus       353 s~G~~~s~~~e~~~PV  368 (407)
T COG1419         353 SLGNLFSLMYETRLPV  368 (407)
T ss_pred             chhHHHHHHHHhCCCe
Confidence            3344455555555553

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.71  E-value=0.00017  Score=58.21  Aligned_cols=85  Identities=12%  Similarity=0.088  Sum_probs=45.6

Q ss_pred             EEEEEEeCCChhhh----hhcccccc--cCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC
Q 028884           83 VKFEIWDTAGQERY----AALAPLYY--RGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE  156 (202)
Q Consensus        83 ~~~~i~D~~G~~~~----~~~~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~  156 (202)
                      ..+.++||+|....    ......+.  ...+-.++|+|++..  ...+.+++..+...    -.--+|+||.|-..   
T Consensus       270 ~d~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~--~~~~~~~~~~f~~~----~~~~~I~TKlDEt~---  340 (420)
T PRK14721        270 KHMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSS--GDTLDEVISAYQGH----GIHGCIITKVDEAA---  340 (420)
T ss_pred             CCEEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCC--HHHHHHHHHHhcCC----CCCEEEEEeeeCCC---
Confidence            46889999995431    11111111  123457788888854  22333333333221    12356789999533   


Q ss_pred             CChHHHHHHHHHcCCeEEEec
Q 028884          157 VPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~~~s  177 (202)
                       ..-.+.......+.++..++
T Consensus       341 -~~G~~l~~~~~~~lPi~yvt  360 (420)
T PRK14721        341 -SLGIALDAVIRRKLVLHYVT  360 (420)
T ss_pred             -CccHHHHHHHHhCCCEEEEE
Confidence             33455666667777755554

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.71  E-value=0.00049  Score=46.74  Aligned_cols=25  Identities=24%  Similarity=0.412  Sum_probs=22.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      ...+++.|++|+|||+|++.+....
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999999999998754

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=97.69  E-value=0.00037  Score=44.00  Aligned_cols=69  Identities=17%  Similarity=0.270  Sum_probs=44.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhc-ccccccCccEEEEEE
Q 028884           36 LVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAAL-APLYYRGAAVAVVVY  114 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-~~~~~~~~d~~i~v~  114 (202)
                      +++.|..|+||||+...+..........        .  ....     .+.++|+++....... .......+|.+++++
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~--------v--~~~~-----d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~   66 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKRGKR--------V--LLID-----DYVLIDTPPGLGLLVLLCLLALLAADLVIIVT   66 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCe--------E--EEEC-----CEEEEeCCCCccchhhhhhhhhhhCCEEEEec
Confidence            6788999999999998877633211111        0  1111     6899999986432221 134566789999999


Q ss_pred             eCCCh
Q 028884          115 DITSP  119 (202)
Q Consensus       115 d~~~~  119 (202)
                      +....
T Consensus        67 ~~~~~   71 (99)
T cd01983          67 TPEAL   71 (99)
T ss_pred             CCchh
Confidence            88765

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.66  E-value=0.00031  Score=57.12  Aligned_cols=85  Identities=15%  Similarity=0.066  Sum_probs=46.8

Q ss_pred             EEEEEEeCCChhhhhhc-----c-cccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC
Q 028884           83 VKFEIWDTAGQERYAAL-----A-PLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE  156 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~-----~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~  156 (202)
                      ..+.++||+|.......     . ...+-.+|.+++|+|++...   ........+....  + ..-+|+||.|...   
T Consensus       176 ~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq---~av~~a~~F~~~l--~-i~gvIlTKlD~~a---  246 (437)
T PRK00771        176 ADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQ---QAKNQAKAFHEAV--G-IGGIIITKLDGTA---  246 (437)
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccH---HHHHHHHHHHhcC--C-CCEEEEecccCCC---
Confidence            37899999995432211     1 11133478999999987752   1112222222211  1 2366789999532   


Q ss_pred             CChHHHHHHHHHcCCeEEEec
Q 028884          157 VPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~~~s  177 (202)
                       ..-.+.......+.|+.+++
T Consensus       247 -~~G~~ls~~~~~~~Pi~fig  266 (437)
T PRK00771        247 -KGGGALSAVAETGAPIKFIG  266 (437)
T ss_pred             -cccHHHHHHHHHCcCEEEEe
Confidence             12345556666677765554

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=97.66  E-value=0.00026  Score=48.51  Aligned_cols=106  Identities=22%  Similarity=0.192  Sum_probs=60.4

Q ss_pred             EEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeC
Q 028884           37 VLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDI  116 (202)
Q Consensus        37 ~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~  116 (202)
                      +.-|..|+|||++--.+........ ....-.+..   ... ....+.+.++|+|+..  .......+..+|.++++.+.
T Consensus         4 ~~~~kgg~gkt~~~~~~a~~~~~~~-~~~~~vd~D---~~~-~~~~yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~   76 (139)
T cd02038           4 VTSGKGGVGKTNISANLALALAKLG-KRVLLLDAD---LGL-ANLDYDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTP   76 (139)
T ss_pred             EEcCCCCCcHHHHHHHHHHHHHHCC-CcEEEEECC---CCC-CCCCCCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCC
Confidence            3567889999998765544211000 000000000   000 0011679999998743  33334568889999999998


Q ss_pred             CChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCC
Q 028884          117 TSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL  151 (202)
Q Consensus       117 ~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~  151 (202)
                      +.. ++......++.+... ....++.+|+|+.+.
T Consensus        77 ~~~-s~~~~~~~l~~l~~~-~~~~~~~lVvN~~~~  109 (139)
T cd02038          77 EPT-SITDAYALIKKLAKQ-LRVLNFRVVVNRAES  109 (139)
T ss_pred             Chh-HHHHHHHHHHHHHHh-cCCCCEEEEEeCCCC
Confidence            744 345545555555443 234567899999973

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.

>KOG2484 consensus GTPase [General function prediction only]

Probab=97.65  E-value=6.5e-05  Score=58.98  Aligned_cols=66  Identities=20%  Similarity=0.297  Sum_probs=46.0

Q ss_pred             cCCCCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           23 NAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        23 ~~~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      +...+......+++.|+|-|++||||+||+|.......... ..+.+..-..+....    .+.|+|.||.
T Consensus       242 ny~~~~~lk~sIrvGViG~PNVGKSSvINsL~~~k~C~vg~-~pGvT~smqeV~Ldk----~i~llDsPgi  307 (435)
T KOG2484|consen  242 NYCRKGELKTSIRVGIIGYPNVGKSSVINSLKRRKACNVGN-VPGVTRSMQEVKLDK----KIRLLDSPGI  307 (435)
T ss_pred             CcccccccCcceEeeeecCCCCChhHHHHHHHHhccccCCC-CccchhhhhheeccC----CceeccCCce
Confidence            34455556789999999999999999999999987755543 222222233333322    5889999994

>PRK10867 signal recognition particle protein; Provisional

Probab=97.64  E-value=8.4e-05  Score=60.21  Aligned_cols=85  Identities=15%  Similarity=0.096  Sum_probs=46.1

Q ss_pred             EEEEEEeCCChhhh-----hhc--ccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCC
Q 028884           83 VKFEIWDTAGQERY-----AAL--APLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKR  155 (202)
Q Consensus        83 ~~~~i~D~~G~~~~-----~~~--~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~  155 (202)
                      +.+.++||+|....     ..+  ....+ ..+.+++|+|+....   ........+....  +. .-+|+||.|.... 
T Consensus       184 ~DvVIIDTaGrl~~d~~lm~eL~~i~~~v-~p~evllVlda~~gq---~av~~a~~F~~~~--~i-~giIlTKlD~~~r-  255 (433)
T PRK10867        184 YDVVIVDTAGRLHIDEELMDELKAIKAAV-NPDEILLVVDAMTGQ---DAVNTAKAFNEAL--GL-TGVILTKLDGDAR-  255 (433)
T ss_pred             CCEEEEeCCCCcccCHHHHHHHHHHHHhh-CCCeEEEEEecccHH---HHHHHHHHHHhhC--CC-CEEEEeCccCccc-
Confidence            57999999994321     111  11111 467789999987642   2222222233211  11 3566799995322 


Q ss_pred             CCChHHHHHHHHHcCCeEEEecc
Q 028884          156 EVPAQDGIEYAEKNGMFFIETSA  178 (202)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~~~s~  178 (202)
                         .-.+.......+.|+.++..
T Consensus       256 ---gG~alsi~~~~~~PI~fig~  275 (433)
T PRK10867        256 ---GGAALSIRAVTGKPIKFIGT  275 (433)
T ss_pred             ---ccHHHHHHHHHCcCEEEEeC
Confidence               22355666667777666543

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=97.61  E-value=0.00018  Score=54.92  Aligned_cols=60  Identities=18%  Similarity=0.244  Sum_probs=37.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCC------CCCccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFD------PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      ....++.|+|.||+|||||||.+......      ....+..+..... .+.+.+..  .+.+.||||.
T Consensus       141 ~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~-~iri~~rp--~vy~iDTPGi  206 (335)
T KOG2485|consen  141 NSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSE-RIRISHRP--PVYLIDTPGI  206 (335)
T ss_pred             CCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehh-heEeccCC--ceEEecCCCc
Confidence            45789999999999999999988653221      1122222222211 23333333  5889999994

>TIGR00959 ffh signal recognition particle protein

Probab=97.61  E-value=7.2e-05  Score=60.52  Aligned_cols=85  Identities=16%  Similarity=0.101  Sum_probs=47.5

Q ss_pred             EEEEEEeCCChhhh-----hhc--ccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCC
Q 028884           83 VKFEIWDTAGQERY-----AAL--APLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKR  155 (202)
Q Consensus        83 ~~~~i~D~~G~~~~-----~~~--~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~  155 (202)
                      +.+.++||+|....     ..+  ... .-..|.+++|+|+..+.   ....+...+....  + ..-+|.||.|.... 
T Consensus       183 ~DvVIIDTaGr~~~d~~l~~eL~~i~~-~~~p~e~lLVvda~tgq---~~~~~a~~f~~~v--~-i~giIlTKlD~~~~-  254 (428)
T TIGR00959       183 FDVVIVDTAGRLQIDEELMEELAAIKE-ILNPDEILLVVDAMTGQ---DAVNTAKTFNERL--G-LTGVVLTKLDGDAR-  254 (428)
T ss_pred             CCEEEEeCCCccccCHHHHHHHHHHHH-hhCCceEEEEEeccchH---HHHHHHHHHHhhC--C-CCEEEEeCccCccc-
Confidence            57999999994321     111  111 22468889999987652   2222333333221  1 14666899995322 


Q ss_pred             CCChHHHHHHHHHcCCeEEEecc
Q 028884          156 EVPAQDGIEYAEKNGMFFIETSA  178 (202)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~~~s~  178 (202)
                         .-.+.......+.|+.++..
T Consensus       255 ---~G~~lsi~~~~~~PI~fi~~  274 (428)
T TIGR00959       255 ---GGAALSVRSVTGKPIKFIGV  274 (428)
T ss_pred             ---ccHHHHHHHHHCcCEEEEeC
Confidence               22366666677777666543

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=97.57  E-value=0.001  Score=49.01  Aligned_cols=62  Identities=27%  Similarity=0.248  Sum_probs=40.6

Q ss_pred             EEEEEeC-CChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCC
Q 028884           84 KFEIWDT-AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL  151 (202)
Q Consensus        84 ~~~i~D~-~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~  151 (202)
                      .+.++|| .|.+.|   -+...+++|.+|+|+|++.. ++....+.-+......  -+++.+|+||.|-
T Consensus       135 e~VivDtEAGiEHf---gRg~~~~vD~vivVvDpS~~-sl~taeri~~L~~elg--~k~i~~V~NKv~e  197 (255)
T COG3640         135 EVVIVDTEAGIEHF---GRGTIEGVDLVIVVVDPSYK-SLRTAERIKELAEELG--IKRIFVVLNKVDE  197 (255)
T ss_pred             cEEEEecccchhhh---ccccccCCCEEEEEeCCcHH-HHHHHHHHHHHHHHhC--CceEEEEEeeccc
Confidence            5667776 344333   34456789999999999865 3444444444444432  3779999999993

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=97.56  E-value=0.00074  Score=43.97  Aligned_cols=100  Identities=14%  Similarity=0.112  Sum_probs=58.2

Q ss_pred             EcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCC
Q 028884           39 LGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITS  118 (202)
Q Consensus        39 ~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~  118 (202)
                      =+..|+||||+.-.|...-........       ..+..+....-.+.++|+|+...  ......+..+|.++++.+.+.
T Consensus         6 ~~kgg~gkt~~~~~la~~~~~~~~~~~-------~l~d~d~~~~~D~IIiDtpp~~~--~~~~~~l~~aD~vlvvv~~~~   76 (106)
T cd03111           6 GAKGGVGATTLAANLAVALAKEAGRRV-------LLVDLDLQFGDDYVVVDLGRSLD--EVSLAALDQADRVFLVTQQDL   76 (106)
T ss_pred             CCCCCCcHHHHHHHHHHHHHhcCCCcE-------EEEECCCCCCCCEEEEeCCCCcC--HHHHHHHHHcCeEEEEecCCh
Confidence            356789999988766542211100100       00111100111799999998543  233446678899999988765


Q ss_pred             hhHHHHHHHHHHHHHHcCCC-CCeEEEEEeC
Q 028884          119 PDSFNKAQYWVKELQKHGSP-DIVMALVGNK  148 (202)
Q Consensus       119 ~~s~~~~~~~~~~i~~~~~~-~~p~ivv~nK  148 (202)
                      . +......+++.++....+ ...+.+|+|+
T Consensus        77 ~-s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          77 P-SIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             H-HHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            4 466667777777665443 4457777775

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.56  E-value=0.0014  Score=52.12  Aligned_cols=85  Identities=12%  Similarity=0.093  Sum_probs=46.0

Q ss_pred             EEEEEEeCCChhhhh----hccccccc--CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC
Q 028884           83 VKFEIWDTAGQERYA----ALAPLYYR--GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE  156 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~----~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~  156 (202)
                      +.+.++||+|.....    .....+..  ..+.+++|.++...  ..++...+..+...    -+--+|+||.|...   
T Consensus       286 ~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~~--~~d~~~i~~~f~~l----~i~glI~TKLDET~---  356 (407)
T PRK12726        286 VDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGMK--SADVMTILPKLAEI----PIDGFIITKMDETT---  356 (407)
T ss_pred             CCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCccc--HHHHHHHHHhcCcC----CCCEEEEEcccCCC---
Confidence            589999999963221    11111121  34666777776433  33333333332211    12466789999532   


Q ss_pred             CChHHHHHHHHHcCCeEEEec
Q 028884          157 VPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~~~s  177 (202)
                       ..-.+...+...+.|+..++
T Consensus       357 -~~G~~Lsv~~~tglPIsylt  376 (407)
T PRK12726        357 -RIGDLYTVMQETNLPVLYMT  376 (407)
T ss_pred             -CccHHHHHHHHHCCCEEEEe
Confidence             24456666677777765554

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.55  E-value=0.00029  Score=57.16  Aligned_cols=85  Identities=13%  Similarity=0.094  Sum_probs=46.2

Q ss_pred             EEEEEEeCCChhhhh----hccccccc---CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCC
Q 028884           83 VKFEIWDTAGQERYA----ALAPLYYR---GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKR  155 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~----~~~~~~~~---~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~  155 (202)
                      ..+.++||+|.....    .....++.   ...-+++|++++..  ...+...+..+...   + +--+|+||.|-..  
T Consensus       300 ~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~--~~~l~~~~~~f~~~---~-~~~vI~TKlDet~--  371 (424)
T PRK05703        300 CDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTK--YEDLKDIYKHFSRL---P-LDGLIFTKLDETS--  371 (424)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCC--HHHHHHHHHHhCCC---C-CCEEEEecccccc--
Confidence            579999999953221    11112222   23466777888654  22333333333321   1 1357789999532  


Q ss_pred             CCChHHHHHHHHHcCCeEEEec
Q 028884          156 EVPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~~~s  177 (202)
                        ....+.......+.++..++
T Consensus       372 --~~G~i~~~~~~~~lPv~yit  391 (424)
T PRK05703        372 --SLGSILSLLIESGLPISYLT  391 (424)
T ss_pred             --cccHHHHHHHHHCCCEEEEe
Confidence              23356666777777765554

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.52  E-value=0.00069  Score=51.94  Aligned_cols=105  Identities=21%  Similarity=0.285  Sum_probs=62.5

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCC----------------
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG----------------   92 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------------   92 (202)
                      +..+-.+++++|++|.|||+++++|..... ...+.. .             ..+.+..+.+|.                
T Consensus        57 ~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp-~~~d~~-~-------------~~~PVv~vq~P~~p~~~~~Y~~IL~~lg  121 (302)
T PF05621_consen   57 KRHRMPNLLIVGDSNNGKTMIIERFRRLHP-PQSDED-A-------------ERIPVVYVQMPPEPDERRFYSAILEALG  121 (302)
T ss_pred             cccCCCceEEecCCCCcHHHHHHHHHHHCC-CCCCCC-C-------------ccccEEEEecCCCCChHHHHHHHHHHhC
Confidence            344567899999999999999999997442 211111 0             012344444433                


Q ss_pred             --------hhhhhhcccccccCccEEEEEEeCCC---hhHHHHHHHHHHHHHHcC-CCCCeEEEEEeC
Q 028884           93 --------QERYAALAPLYYRGAAVAVVVYDITS---PDSFNKAQYWVKELQKHG-SPDIVMALVGNK  148 (202)
Q Consensus        93 --------~~~~~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK  148 (202)
                              ...........++...+=++++|--.   ..+....+.++..++..+ .-++|+|.||++
T Consensus       122 aP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~  189 (302)
T PF05621_consen  122 APYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTR  189 (302)
T ss_pred             cccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccH
Confidence                    11122233445666777788888432   133455566667666653 357889988865

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.52  E-value=0.0025  Score=51.36  Aligned_cols=94  Identities=17%  Similarity=0.111  Sum_probs=48.7

Q ss_pred             EEEEEEeCCChhhhh----hccccccc-----CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           83 VKFEIWDTAGQERYA----ALAPLYYR-----GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~----~~~~~~~~-----~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      ..+.++||+|.....    ..+..+++     ...-.++|+|++...  ..+...+......    -+--+|+||.|-..
T Consensus       300 ~D~VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~--~~~~~~~~~f~~~----~~~glIlTKLDEt~  373 (432)
T PRK12724        300 SELILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSY--HHTLTVLKAYESL----NYRRILLTKLDEAD  373 (432)
T ss_pred             CCEEEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCH--HHHHHHHHHhcCC----CCCEEEEEcccCCC
Confidence            578999999954211    11111111     134678888988652  2333333333221    12456789999532


Q ss_pred             CCCCChHHHHHHHHHcCCeEEEec--cCCCCCHHH
Q 028884          154 KREVPAQDGIEYAEKNGMFFIETS--AKTADNINQ  186 (202)
Q Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~s--~~~~~~i~~  186 (202)
                          ..-.+.......+.|+..++  ..-.+++..
T Consensus       374 ----~~G~il~i~~~~~lPI~ylt~GQ~VPeDi~~  404 (432)
T PRK12724        374 ----FLGSFLELADTYSKSFTYLSVGQEVPFDILN  404 (432)
T ss_pred             ----CccHHHHHHHHHCCCEEEEecCCCCCCCHHH
Confidence                23345556666677754443  333444443

>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=97.46  E-value=0.0098  Score=41.84  Aligned_cols=141  Identities=9%  Similarity=0.045  Sum_probs=95.7

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEe-CCChhhhhhcccccccCcc
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD-TAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D-~~G~~~~~~~~~~~~~~~d  108 (202)
                      -.+...|+++|..+.++..|.+.+......        ...             +++.-- .|=..+    ....-...|
T Consensus        12 ~ln~atiLLVg~e~~~~~~LA~a~l~~~~~--------~~l-------------~Vh~a~sLPLp~e----~~~lRprID   66 (176)
T PF11111_consen   12 ELNTATILLVGTEEALLQQLAEAMLEEDKE--------FKL-------------KVHLAKSLPLPSE----NNNLRPRID   66 (176)
T ss_pred             CcceeEEEEecccHHHHHHHHHHHHhhccc--------eeE-------------EEEEeccCCCccc----ccCCCceeE
Confidence            345789999999999999999999962211        111             111111 000000    111133479


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      .++|++|.....|+...+.-+..+....-.++ +.++.+.....+...+...+..+++..+.++++.+.-...++...+-
T Consensus        67 lIVFvinl~sk~SL~~ve~SL~~vd~~fflGK-VCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~~~le~~~~~~~lA  145 (176)
T PF11111_consen   67 LIVFVINLHSKYSLQSVEASLSHVDPSFFLGK-VCFLATNAGRESHCSVHPNEVRKLAATYNSPLLFADLENEEGRTSLA  145 (176)
T ss_pred             EEEEEEecCCcccHHHHHHHHhhCChhhhccc-eEEEEcCCCcccccccCHHHHHHHHHHhCCCEEEeecccchHHHHHH
Confidence            99999999999999888776666543322244 44445555555667788999999999999999999988888887777


Q ss_pred             HHHHHHcC
Q 028884          189 EEIAKRLP  196 (202)
Q Consensus       189 ~~l~~~i~  196 (202)
                      +.|++.++
T Consensus       146 qRLL~~lq  153 (176)
T PF11111_consen  146 QRLLRMLQ  153 (176)
T ss_pred             HHHHHHHH
Confidence            77776653

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 [].

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.46  E-value=0.00012  Score=48.64  Aligned_cols=22  Identities=23%  Similarity=0.471  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .|+|.|++||||||+.+.|...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999999873

...

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.46  E-value=0.003  Score=51.99  Aligned_cols=22  Identities=27%  Similarity=0.524  Sum_probs=19.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      --++++|++|+||||++..|..
T Consensus       257 ~Vi~LvGpnGvGKTTTiaKLA~  278 (484)
T PRK06995        257 GVFALMGPTGVGKTTTTAKLAA  278 (484)
T ss_pred             cEEEEECCCCccHHHHHHHHHH
Confidence            4588999999999999988875

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.44  E-value=0.0014  Score=56.57  Aligned_cols=87  Identities=13%  Similarity=0.136  Sum_probs=46.0

Q ss_pred             EEEEEEeCCChhh----hhhccccc--ccCccEEEEEEeCCCh-hHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCC
Q 028884           83 VKFEIWDTAGQER----YAALAPLY--YRGAAVAVVVYDITSP-DSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKR  155 (202)
Q Consensus        83 ~~~~i~D~~G~~~----~~~~~~~~--~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~  155 (202)
                      ..+.|+||+|...    ........  ....+-+++|+|++.. +.+.++.   +.+......+ +--+|+||.|...  
T Consensus       264 ~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i~---~~f~~~~~~~-i~glIlTKLDEt~--  337 (767)
T PRK14723        264 KHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLNEVV---HAYRHGAGED-VDGCIITKLDEAT--  337 (767)
T ss_pred             CCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHHHHHHH---HHHhhcccCC-CCEEEEeccCCCC--
Confidence            4789999999322    11111111  2234567888888753 3344332   2232211011 2356789999543  


Q ss_pred             CCChHHHHHHHHHcCCeEEEec
Q 028884          156 EVPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~~~s  177 (202)
                        ..-.+.......+.++..++
T Consensus       338 --~~G~iL~i~~~~~lPI~yit  357 (767)
T PRK14723        338 --HLGPALDTVIRHRLPVHYVS  357 (767)
T ss_pred             --CccHHHHHHHHHCCCeEEEe
Confidence              23445566666777755554

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.44  E-value=0.0028  Score=50.81  Aligned_cols=84  Identities=8%  Similarity=-0.066  Sum_probs=45.4

Q ss_pred             EEEEEEeCCChhhhhh----cccccccC--cc-EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCC
Q 028884           83 VKFEIWDTAGQERYAA----LAPLYYRG--AA-VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKR  155 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~----~~~~~~~~--~d-~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~  155 (202)
                      +.+.++||+|......    ....++..  .+ -.++|+|++..  ...+...+......    -+--+|+||.|-..  
T Consensus       255 ~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~--~~~~~~~~~~~~~~----~~~~~I~TKlDet~--  326 (388)
T PRK12723        255 FDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTK--TSDVKEIFHQFSPF----SYKTVIFTKLDETT--  326 (388)
T ss_pred             CCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCC--HHHHHHHHHHhcCC----CCCEEEEEeccCCC--
Confidence            5799999999543211    11112221  13 57889998876  23333333333221    12456789999533  


Q ss_pred             CCChHHHHHHHHHcCCeEEEe
Q 028884          156 EVPAQDGIEYAEKNGMFFIET  176 (202)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~~~  176 (202)
                        ..-.+.......+.|+..+
T Consensus       327 --~~G~~l~~~~~~~~Pi~yi  345 (388)
T PRK12723        327 --CVGNLISLIYEMRKEVSYV  345 (388)
T ss_pred             --cchHHHHHHHHHCCCEEEE
Confidence              2334555566666665444

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.43  E-value=0.0042  Score=47.38  Aligned_cols=85  Identities=9%  Similarity=0.066  Sum_probs=47.7

Q ss_pred             EEEEEEeCCChhhh-----hhccccc-ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC
Q 028884           83 VKFEIWDTAGQERY-----AALAPLY-YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE  156 (202)
Q Consensus        83 ~~~~i~D~~G~~~~-----~~~~~~~-~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~  156 (202)
                      +.+.++||+|....     ..+.... .-..+-+++|+|++..  ...+..++..+...    .+--+|+||.|...   
T Consensus       155 ~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~--~~d~~~~~~~f~~~----~~~~~I~TKlDet~---  225 (270)
T PRK06731        155 VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMK--SKDMIEIITNFKDI----HIDGIVFTKFDETA---  225 (270)
T ss_pred             CCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccC--HHHHHHHHHHhCCC----CCCEEEEEeecCCC---
Confidence            68999999995421     1221111 1134678999998753  22333333333321    22467789999543   


Q ss_pred             CChHHHHHHHHHcCCeEEEec
Q 028884          157 VPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~~~s  177 (202)
                       ..-.+...+...+.|+..++
T Consensus       226 -~~G~~l~~~~~~~~Pi~~it  245 (270)
T PRK06731        226 -SSGELLKIPAVSSAPIVLMT  245 (270)
T ss_pred             -CccHHHHHHHHHCcCEEEEe
Confidence             23345566666777755554

>PRK08118 topology modulation protein; Reviewed

Probab=97.41  E-value=0.00015  Score=51.28  Aligned_cols=22  Identities=32%  Similarity=0.617  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +|+|+|++|||||||...|...
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~   24 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEK   24 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999998864

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.41  E-value=0.00015  Score=51.84  Aligned_cols=23  Identities=26%  Similarity=0.687  Sum_probs=21.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .+|+|+|+||+||||+..+|...
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999999875

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.40  E-value=0.0002  Score=41.55  Aligned_cols=22  Identities=23%  Similarity=0.308  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ..+|.|+.|+|||||++.+..-
T Consensus        25 ~tli~G~nGsGKSTllDAi~~~   46 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQTV   46 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999988753

>PRK07261 topology modulation protein; Provisional

Probab=97.39  E-value=0.00017  Score=51.31  Aligned_cols=22  Identities=32%  Similarity=0.596  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +|+|+|.+|+|||||.+.|...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            7999999999999999998753

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.38  E-value=0.00015  Score=49.68  Aligned_cols=20  Identities=35%  Similarity=0.702  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 028884           36 LVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~   55 (202)
                      |+++|+||||||||++.|..
T Consensus         2 ii~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999985

...

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=97.36  E-value=0.0028  Score=50.12  Aligned_cols=21  Identities=19%  Similarity=0.474  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .+|.|--|+|||||+++++..
T Consensus         7 ~iltGFLGaGKTTll~~ll~~   27 (341)
T TIGR02475         7 TIVTGFLGAGKTTLIRHLLQN   27 (341)
T ss_pred             EEEEECCCCCHHHHHHHHHhc
Confidence            578899999999999999864

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.35  E-value=0.00011  Score=57.59  Aligned_cols=42  Identities=14%  Similarity=0.211  Sum_probs=27.4

Q ss_pred             EEEEEEeCCChhh-----hhhcc--cccccCccEEEEEEeCCChhHHHHH
Q 028884           83 VKFEIWDTAGQER-----YAALA--PLYYRGAAVAVVVYDITSPDSFNKA  125 (202)
Q Consensus        83 ~~~~i~D~~G~~~-----~~~~~--~~~~~~~d~~i~v~d~~~~~s~~~~  125 (202)
                      +++.|+||+|.-.     |..+.  ...+ ..|-+|+|.|++-+..-+..
T Consensus       184 fdvIIvDTSGRh~qe~sLfeEM~~v~~ai-~Pd~vi~VmDasiGQaae~Q  232 (483)
T KOG0780|consen  184 FDVIIVDTSGRHKQEASLFEEMKQVSKAI-KPDEIIFVMDASIGQAAEAQ  232 (483)
T ss_pred             CcEEEEeCCCchhhhHHHHHHHHHHHhhc-CCCeEEEEEeccccHhHHHH
Confidence            7899999999432     12111  1122 37999999999987554443

>KOG1534 consensus Putative transcription factor FET5 [Transcription]

Probab=97.31  E-value=0.00027  Score=51.13  Aligned_cols=22  Identities=23%  Similarity=0.385  Sum_probs=19.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-++|+|+.||||||+++.+..
T Consensus         4 ya~lV~GpAgSGKSTyC~~~~~   25 (273)
T KOG1534|consen    4 YAQLVMGPAGSGKSTYCSSMYE   25 (273)
T ss_pred             eeEEEEccCCCCcchHHHHHHH
Confidence            4578999999999999988864

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.31  E-value=0.0028  Score=45.24  Aligned_cols=27  Identities=19%  Similarity=0.228  Sum_probs=22.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .+.=.++++|+.|+|||||++-+.+-.
T Consensus        23 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          23 KEGEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            344578999999999999999988743

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=97.27  E-value=0.0064  Score=43.13  Aligned_cols=84  Identities=14%  Similarity=0.022  Sum_probs=49.7

Q ss_pred             EEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHH
Q 028884           84 KFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGI  163 (202)
Q Consensus        84 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~  163 (202)
                      .+.++|+|+....  .....+..+|.+|++++.+.. ++..+..+++.+....  .....+|+|+.+.....  ..+...
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~~-s~~~~~~~~~~~~~~~--~~~~~iv~N~~~~~~~~--~~~~~~  136 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPEIS-SLRDADRVKGLLEALG--IKVVGVIVNRVRPDMVE--GGDMVE  136 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCCcc-hHHHHHHHHHHHHHcC--CceEEEEEeCCcccccc--hhhHHH
Confidence            6999999875432  233446789999999988754 3455555555555431  23467889999853221  112123


Q ss_pred             HHHHHcCCeEE
Q 028884          164 EYAEKNGMFFI  174 (202)
Q Consensus       164 ~~~~~~~~~~~  174 (202)
                      .+.+..+.+++
T Consensus       137 ~~~~~~~~~v~  147 (179)
T cd02036         137 DIEEILGVPLL  147 (179)
T ss_pred             HHHHHhCCCEE
Confidence            34444555543

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.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=97.27  E-value=0.0041  Score=51.83  Aligned_cols=86  Identities=8%  Similarity=0.060  Sum_probs=45.5

Q ss_pred             cEEEEEEeCCChhHH--HHHHHHHHHHHHcCCCCC-eEEEEEeCCCCCCCCCC--------ChHHHHHHHHHcCCeEEEe
Q 028884          108 AVAVVVYDITSPDSF--NKAQYWVKELQKHGSPDI-VMALVGNKADLHEKREV--------PAQDGIEYAEKNGMFFIET  176 (202)
Q Consensus       108 d~~i~v~d~~~~~s~--~~~~~~~~~i~~~~~~~~-p~ivv~nK~D~~~~~~~--------~~~~~~~~~~~~~~~~~~~  176 (202)
                      --+|+|=|.-+-..-  ..+...+......  ... |+|+|++-+|.......        .......+....++..+.+
T Consensus       133 ~kvILVEDlPN~~~~~~~~f~~~L~~~l~~--~~~~PlV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~~~i~~I~F  210 (519)
T PF03215_consen  133 KKVILVEDLPNVFHRDTSRFREALRQYLRS--SRCLPLVFIISETESLSGDNSYRSNSFTAERLFPKEILNHPGITRIKF  210 (519)
T ss_pred             ceEEEeeccccccchhHHHHHHHHHHHHHc--CCCCCEEEEEecccccCCCCcccccchhhhhccCHHHHhCCCceEEEe
Confidence            345666566542111  3333333332222  234 99999996653221110        0111234445567778888


Q ss_pred             ccCCCCCHHHHHHHHHHHc
Q 028884          177 SAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       177 s~~~~~~i~~~~~~l~~~i  195 (202)
                      .+....-+...+..|+..-
T Consensus       211 NpIa~T~mkKaL~rI~~~E  229 (519)
T PF03215_consen  211 NPIAPTFMKKALKRILKKE  229 (519)
T ss_pred             cCCCHHHHHHHHHHHHHHH
Confidence            8887777777777776643

>KOG0066 consensus eIF2-interacting protein ABC50 (ABC superfamily) [Translation, ribosomal structure and biogenesis]

Probab=97.25  E-value=0.0028  Score=51.12  Aligned_cols=26  Identities=23%  Similarity=0.584  Sum_probs=22.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +-.-+|+|+|+.|+|||||+.-|++.
T Consensus       611 DmdSRiaIVGPNGVGKSTlLkLL~Gk  636 (807)
T KOG0066|consen  611 DMDSRIAIVGPNGVGKSTLLKLLIGK  636 (807)
T ss_pred             cccceeEEECCCCccHHHHHHHHhcC
Confidence            34568999999999999999988874

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.24  E-value=0.00021  Score=50.28  Aligned_cols=22  Identities=18%  Similarity=0.481  Sum_probs=17.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ||+|.|.+++|||||++.|...
T Consensus         1 rI~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             -EEEE--TTSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHc
Confidence            7999999999999999999874

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=97.24  E-value=0.00015  Score=57.07  Aligned_cols=59  Identities=19%  Similarity=0.282  Sum_probs=0.0

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCC
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG   92 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   92 (202)
                      ....+|.|.++|=|++||||+||+|-..+..........+.. ...+.+..    ++.++|+||
T Consensus       303 ~dkkqISVGfiGYPNvGKSSiINTLR~KkVCkvAPIpGETKV-WQYItLmk----rIfLIDcPG  361 (572)
T KOG2423|consen  303 SDKKQISVGFIGYPNVGKSSIINTLRKKKVCKVAPIPGETKV-WQYITLMK----RIFLIDCPG  361 (572)
T ss_pred             cCccceeeeeecCCCCchHHHHHHHhhcccccccCCCCcchH-HHHHHHHh----ceeEecCCC

>PRK04195 replication factor C large subunit; Provisional

Probab=97.22  E-value=0.0053  Score=50.95  Aligned_cols=24  Identities=29%  Similarity=0.570  Sum_probs=21.2

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-.+++.|++|+||||+++.+...
T Consensus        39 ~~~lLL~GppG~GKTtla~ala~e   62 (482)
T PRK04195         39 KKALLLYGPPGVGKTSLAHALAND   62 (482)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            457899999999999999999874

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.20  E-value=0.0049  Score=50.85  Aligned_cols=88  Identities=6%  Similarity=-0.020  Sum_probs=46.1

Q ss_pred             EEEEEEeCCChh---HHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHH
Q 028884          109 VAVVVYDITSPD---SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNIN  185 (202)
Q Consensus       109 ~~i~v~d~~~~~---s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~  185 (202)
                      .+|+|=|+-+-.   ..+.++..+..+-.  ....|+|++++-+-..............+....++..+..+.....-++
T Consensus       196 ~liLveDLPn~~~~d~~~~f~evL~~y~s--~g~~PlIf~iTd~~~~g~nnq~rlf~~d~q~~~ri~~IsFNPIa~T~MK  273 (634)
T KOG1970|consen  196 KLILVEDLPNQFYRDDSETFREVLRLYVS--IGRCPLIFIITDSLSNGNNNQDRLFPKDIQEEPRISNISFNPIAPTIMK  273 (634)
T ss_pred             eEEEeeccchhhhhhhHHHHHHHHHHHHh--cCCCcEEEEEeccccCCCcchhhhchhhhhhccCcceEeecCCcHHHHH
Confidence            457777765532   23333444443333  3468899999877653322222222223334556666666655555566


Q ss_pred             HHHHHHHHHcCCC
Q 028884          186 QLFEEIAKRLPRP  198 (202)
Q Consensus       186 ~~~~~l~~~i~~~  198 (202)
                      .++..|+.....+
T Consensus       274 K~L~ric~~e~~~  286 (634)
T KOG1970|consen  274 KFLKRICRIEANK  286 (634)
T ss_pred             HHHHHHHHHhccc
Confidence            6666665554443

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.20  E-value=0.00043  Score=41.30  Aligned_cols=21  Identities=29%  Similarity=0.567  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      |.+.|.+|+||||+.+.|...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            688999999999999998874

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.19  E-value=0.0013  Score=46.24  Aligned_cols=27  Identities=26%  Similarity=0.272  Sum_probs=22.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .+.=.++++|+.|+|||||++.+.+..
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          24 RRGEVHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            344578899999999999999988743

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=97.17  E-value=0.0024  Score=54.99  Aligned_cols=116  Identities=18%  Similarity=0.192  Sum_probs=53.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCC---Chhhhhhcccccc---cCcc
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA---GQERYAALAPLYY---RGAA  108 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~---G~~~~~~~~~~~~---~~~d  108 (202)
                      -++|.|++|+||||+.+.|.................+.....+.++....+..+|..   |.+..+.+.....   ....
T Consensus        40 AyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr  119 (830)
T PRK07003         40 AYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDAR  119 (830)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEEEecccccccHHHHHHHHHHHHhccccCC
Confidence            358999999999999987776443222111111111111111222222334444432   3333333332211   1234


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCC
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL  151 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~  151 (202)
                      .-||++|--+.-+-.....+++.++.- ..+..+|++.|....
T Consensus       120 ~KVIIIDEah~LT~~A~NALLKtLEEP-P~~v~FILaTtd~~K  161 (830)
T PRK07003        120 FKVYMIDEVHMLTNHAFNAMLKTLEEP-PPHVKFILATTDPQK  161 (830)
T ss_pred             ceEEEEeChhhCCHHHHHHHHHHHHhc-CCCeEEEEEECChhh
Confidence            556777765543322333334434332 235667777766554

>PLN02200 adenylate kinase family protein

Probab=97.17  E-value=0.00077  Score=50.38  Aligned_cols=35  Identities=31%  Similarity=0.445  Sum_probs=26.5

Q ss_pred             cccCCCCCCCCceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           21 LENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        21 ~~~~~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+.............|+|+|.|||||||+..+|..
T Consensus        31 ~~~~~~~~~~~~~~ii~I~G~PGSGKsT~a~~La~   65 (234)
T PLN02200         31 LEERGSSSKEKTPFITFVLGGPGSGKGTQCEKIVE   65 (234)
T ss_pred             cccccCCccCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            33444444455568899999999999999988875

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=97.15  E-value=0.0021  Score=50.26  Aligned_cols=25  Identities=24%  Similarity=0.508  Sum_probs=22.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      ..+|+|.|.+|||||||++.|+...
T Consensus       144 ~~nilI~G~tGSGKTTll~aL~~~i  168 (323)
T PRK13833        144 RLNIVISGGTGSGKTTLANAVIAEI  168 (323)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999999998743

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=97.15  E-value=0.0036  Score=44.63  Aligned_cols=84  Identities=21%  Similarity=0.247  Sum_probs=57.1

Q ss_pred             EEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHH
Q 028884           82 TVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQD  161 (202)
Q Consensus        82 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  161 (202)
                      .+.+.++|+|+....  .....+..+|.+++++..+.. +...+..+++.+...   +.|+.+|+||.|....   ...+
T Consensus        92 ~~d~viiDtpp~~~~--~~~~~l~~aD~vliv~~~~~~-~~~~~~~~~~~l~~~---~~~~~vV~N~~~~~~~---~~~~  162 (179)
T cd03110          92 GAELIIIDGPPGIGC--PVIASLTGADAALLVTEPTPS-GLHDLERAVELVRHF---GIPVGVVINKYDLNDE---IAEE  162 (179)
T ss_pred             CCCEEEEECcCCCcH--HHHHHHHcCCEEEEEecCCcc-cHHHHHHHHHHHHHc---CCCEEEEEeCCCCCcc---hHHH
Confidence            368999999964322  233456789999999998854 455666666666544   4568899999995332   3455


Q ss_pred             HHHHHHHcCCeEE
Q 028884          162 GIEYAEKNGMFFI  174 (202)
Q Consensus       162 ~~~~~~~~~~~~~  174 (202)
                      ..+++...+.+++
T Consensus       163 ~~~~~~~~~~~vl  175 (179)
T cd03110         163 IEDYCEEEGIPIL  175 (179)
T ss_pred             HHHHHHHcCCCeE
Confidence            6677777777654

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.15  E-value=0.0064  Score=41.86  Aligned_cols=25  Identities=24%  Similarity=0.368  Sum_probs=21.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .=.++|+|+.|+|||||++.+.+..
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCC
Confidence            3467899999999999999998743

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=97.14  E-value=0.00039  Score=47.29  Aligned_cols=23  Identities=22%  Similarity=0.364  Sum_probs=20.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      =.++|+|+.|+|||||++.+.+.
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g~   34 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAGL   34 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CEEEEEccCCCccccceeeeccc
Confidence            36889999999999999988874

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.12  E-value=0.00041  Score=51.49  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -|+++|++|||||||++-+.+-
T Consensus        31 fvsilGpSGcGKSTLLriiAGL   52 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAGL   52 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999988774

>PRK01889 GTPase RsgA; Reviewed

Probab=97.11  E-value=0.00067  Score=53.90  Aligned_cols=24  Identities=42%  Similarity=0.631  Sum_probs=21.6

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      -.++++|.+|+|||||+|.+.+..
T Consensus       196 ~~~~lvG~sgvGKStLin~L~g~~  219 (356)
T PRK01889        196 KTVALLGSSGVGKSTLVNALLGEE  219 (356)
T ss_pred             CEEEEECCCCccHHHHHHHHHHhc
Confidence            478999999999999999999754

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.10  E-value=0.00052  Score=46.11  Aligned_cols=21  Identities=24%  Similarity=0.479  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      |++.|++|+|||++++.+...
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            689999999999999999874

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.07  E-value=0.00062  Score=45.81  Aligned_cols=25  Identities=20%  Similarity=0.369  Sum_probs=22.0

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQF   58 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~   58 (202)
                      -.++++|++|+|||+++..+.....
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~   27 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELG   27 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccC
Confidence            4789999999999999999987554

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.06  E-value=0.001  Score=48.79  Aligned_cols=26  Identities=31%  Similarity=0.496  Sum_probs=21.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .+..-|+|+|++|||||||++.|...
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            34566889999999999999999754

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.04  E-value=0.00053  Score=45.85  Aligned_cols=21  Identities=24%  Similarity=0.378  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      |+|.|.+||||||+++.|...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999988764

...

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.04  E-value=0.00057  Score=50.40  Aligned_cols=23  Identities=26%  Similarity=0.320  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      -++|+|+.|||||||+|-+.+-.
T Consensus        33 ~vaI~GpSGSGKSTLLniig~ld   55 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGGLD   55 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            58899999999999999887733

>PRK06217 hypothetical protein; Validated

Probab=97.03  E-value=0.00066  Score=48.74  Aligned_cols=23  Identities=17%  Similarity=0.401  Sum_probs=20.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .+|+|+|.+|||||||...|...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999864

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=97.02  E-value=0.0062  Score=40.67  Aligned_cols=62  Identities=18%  Similarity=0.225  Sum_probs=33.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCC--CCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQF--DPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA   97 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   97 (202)
                      .--|++-|+-|+|||||++.+...--  .....|+......+..   .+..-+.+-++-..+.++..
T Consensus        15 g~vi~L~GdLGaGKTtf~r~l~~~lg~~~~V~SPTF~l~~~Y~~---~~~~l~H~DLYRl~~~~e~~   78 (123)
T PF02367_consen   15 GDVILLSGDLGAGKTTFVRGLARALGIDEEVTSPTFSLVNEYEG---GNIPLYHFDLYRLEDPEELE   78 (123)
T ss_dssp             -EEEEEEESTTSSHHHHHHHHHHHTT--S----TTTTSEEEEEE---TTEEEEEEE-TT-SSTHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHcCCCCCcCCCCeEEEEEecC---CCceEEEeeccccCCHHHHH
Confidence            34588999999999999998887432  2344555555433322   23233445555555555443

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.02  E-value=0.0016  Score=46.25  Aligned_cols=44  Identities=23%  Similarity=0.174  Sum_probs=28.2

Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      |++++|+|+.++.+-.. ..+.+.+. ....++|+++|+||+|+.+
T Consensus         1 DvVl~VvDar~p~~~~~-~~i~~~~~-l~~~~kp~IlVlNK~DL~~   44 (172)
T cd04178           1 DVILEVLDARDPLGCRC-PQVEEAVL-QAGGNKKLVLVLNKIDLVP   44 (172)
T ss_pred             CEEEEEEECCCCCCCCC-HHHHHHHH-hccCCCCEEEEEehhhcCC
Confidence            78999999988732211 12222221 2133689999999999864

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

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=97.01  E-value=0.00068  Score=46.31  Aligned_cols=21  Identities=48%  Similarity=0.767  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      |+|+|++|+|||||++.|...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            689999999999999999874

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>PRK14530 adenylate kinase; Provisional

Probab=97.00  E-value=0.00071  Score=49.89  Aligned_cols=22  Identities=27%  Similarity=0.522  Sum_probs=19.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+|+|+|+|||||||+.+.|..
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998864

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=96.99  E-value=0.0049  Score=48.69  Aligned_cols=26  Identities=23%  Similarity=0.460  Sum_probs=23.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      ...+|+|.|++|||||||++.|++.-
T Consensus       161 ~~~nilI~G~tGSGKTTll~aLl~~i  186 (344)
T PRK13851        161 GRLTMLLCGPTGSGKTTMSKTLISAI  186 (344)
T ss_pred             cCCeEEEECCCCccHHHHHHHHHccc
Confidence            45789999999999999999998743

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=96.99  E-value=0.0006  Score=46.64  Aligned_cols=25  Identities=28%  Similarity=0.517  Sum_probs=22.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ....+|+|.|-||+|||||..++..
T Consensus         5 r~~PNILvtGTPG~GKstl~~~lae   29 (176)
T KOG3347|consen    5 RERPNILVTGTPGTGKSTLAERLAE   29 (176)
T ss_pred             hcCCCEEEeCCCCCCchhHHHHHHH
Confidence            4578999999999999999999874

>TIGR00235 udk uridine kinase

Probab=96.99  E-value=0.00093  Score=48.95  Aligned_cols=26  Identities=19%  Similarity=0.299  Sum_probs=22.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ++..-|+|.|++|||||||++.+.+.
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence            44577899999999999999999863

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.99  E-value=0.0037  Score=48.50  Aligned_cols=25  Identities=20%  Similarity=0.496  Sum_probs=22.1

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ...+|+|.|++|+|||||++.+...
T Consensus       131 ~~~~ilI~G~tGSGKTTll~al~~~  155 (299)
T TIGR02782       131 ARKNILVVGGTGSGKTTLANALLAE  155 (299)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999999864

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>KOG3929 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.98  E-value=0.00072  Score=50.45  Aligned_cols=97  Identities=15%  Similarity=0.272  Sum_probs=60.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccC----
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRG----  106 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~----  106 (202)
                      ..+..|++.|..+.  |++|++.+.... ....++...++++....-.++.+-...+|+.+|......+...-+..    
T Consensus        43 ~~E~~I~~~Gn~~~--tt~I~~~FdR~e-~~~~ptlaLEYtygRR~~g~~~kdiaN~WELGgg~~~~~LLsVPit~~~l~  119 (363)
T KOG3929|consen   43 KFEFFIGSKGNGGK--TTIILRCFDRDE-PPKPPTLALEYTYGRRAKGHNPKDIANFWELGGGTSLLDLLSVPITGDTLR  119 (363)
T ss_pred             cceeEEEEecCCce--eEeehhhcCccc-CCCCCceeeeeehhhhccCCCchhHHHHHHhcCCccHHHHhcCcccccchh
Confidence            45788999998765  999999987653 33455555556554443333333345799999866555444433332    


Q ss_pred             ccEEEEEEeCCChhHH-HHHHHHHH
Q 028884          107 AAVAVVVYDITSPDSF-NKAQYWVK  130 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~-~~~~~~~~  130 (202)
                      .=.+|++.|+++++.+ ..+...+.
T Consensus       120 ~~slIL~LDls~p~~~W~t~E~~~~  144 (363)
T KOG3929|consen  120 TFSLILVLDLSKPNDLWPTMENLLQ  144 (363)
T ss_pred             hhhheeeeecCChHHHHHHHHHHHH
Confidence            1257899999998654 34444444

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=96.97  E-value=0.00079  Score=50.23  Aligned_cols=27  Identities=22%  Similarity=0.442  Sum_probs=23.5

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ....++++|+|.+|||||+|+..++..
T Consensus        10 ~~~~fr~viIG~sGSGKT~li~~lL~~   36 (241)
T PF04665_consen   10 LKDPFRMVIIGKSGSGKTTLIKSLLYY   36 (241)
T ss_pred             cCCCceEEEECCCCCCHHHHHHHHHHh
Confidence            345689999999999999999998864

This is thought to be an ATPase involved in viral DNA packaging [].

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.97  E-value=0.0053  Score=41.60  Aligned_cols=25  Identities=32%  Similarity=0.579  Sum_probs=21.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .--|++.|+.|+|||||++.+....
T Consensus        22 ~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        22 GTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3468899999999999999998753

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=96.96  E-value=0.00068  Score=54.18  Aligned_cols=25  Identities=20%  Similarity=0.367  Sum_probs=20.6

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHH
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFV   54 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~   54 (202)
                      ..++..|+++|..|+||||.+-.|.
T Consensus        97 ~~~P~vImmvGLQGsGKTTt~~KLA  121 (451)
T COG0541          97 KKPPTVILMVGLQGSGKTTTAGKLA  121 (451)
T ss_pred             CCCCeEEEEEeccCCChHhHHHHHH
Confidence            3457889999999999999886554

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.95  E-value=0.00083  Score=45.83  Aligned_cols=22  Identities=23%  Similarity=0.466  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .|+++|++|+|||+|++.+...
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~   22 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAAL   22 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999988763

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PRK03839 putative kinase; Provisional

Probab=96.95  E-value=0.00085  Score=47.99  Aligned_cols=22  Identities=23%  Similarity=0.445  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +|+|+|.+|+||||+.+.|...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999988763

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.94  E-value=0.0011  Score=48.36  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=20.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      =.++++|+.|||||||++.+-+-+
T Consensus        29 evv~iiGpSGSGKSTlLRclN~LE   52 (240)
T COG1126          29 EVVVIIGPSGSGKSTLLRCLNGLE   52 (240)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCc
Confidence            458899999999999999988744

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.94  E-value=0.00089  Score=48.23  Aligned_cols=24  Identities=21%  Similarity=0.455  Sum_probs=21.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-.++|+|++|+|||||++.+.+.
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~   48 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAF   48 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            457999999999999999999874

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.93  E-value=0.00087  Score=48.25  Aligned_cols=22  Identities=27%  Similarity=0.490  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .|+|+|++|+|||||++.|.+.
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5889999999999999999764

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.93  E-value=0.00094  Score=45.81  Aligned_cols=23  Identities=13%  Similarity=0.404  Sum_probs=20.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .|.|+|..++|||||++.|+...
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~l   24 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINEL   24 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58899999999999999998743

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.93  E-value=0.00086  Score=47.88  Aligned_cols=22  Identities=23%  Similarity=0.315  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++|+|++|||||||++.|...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998764

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.92  E-value=0.0071  Score=50.68  Aligned_cols=23  Identities=22%  Similarity=0.372  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      -+++.|++|+||||+++.|....
T Consensus        40 a~Lf~Gp~GvGKTTlAr~lAk~L   62 (546)
T PRK14957         40 AYLFTGTRGVGKTTLGRLLAKCL   62 (546)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999887643

>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional

Probab=96.92  E-value=0.011  Score=45.52  Aligned_cols=20  Identities=30%  Similarity=0.419  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHH
Q 028884           35 KLVLLGDSGVGKSCIVLRFV   54 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~   54 (202)
                      -|+|.|.+||||||+++.|-
T Consensus         8 ~i~i~G~~GsGKtt~~~~l~   27 (288)
T PRK05416          8 LVIVTGLSGAGKSVALRALE   27 (288)
T ss_pred             EEEEECCCCCcHHHHHHHHH
Confidence            58899999999999999994

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=96.91  E-value=0.00081  Score=50.61  Aligned_cols=23  Identities=26%  Similarity=0.328  Sum_probs=20.2

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .=-++++|+.|||||||++.+.+
T Consensus        28 G~i~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          28 GEITGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            34578999999999999999987

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.91  E-value=0.005  Score=44.84  Aligned_cols=22  Identities=23%  Similarity=0.403  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      |+|.|++||||||+++.+....
T Consensus         4 ilI~GptGSGKTTll~~ll~~~   25 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYI   25 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999887744

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=96.91  E-value=0.0056  Score=53.77  Aligned_cols=116  Identities=11%  Similarity=0.102  Sum_probs=54.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEE--EEecCCcEEEEEEEeCC---Chhhhhhcccccc---cC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQT--IALQDSTTVKFEIWDTA---GQERYAALAPLYY---RG  106 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~i~D~~---G~~~~~~~~~~~~---~~  106 (202)
                      -++|.|++|+||||+...|.................+...  +...+.....+..+|..   |.+..+.+.....   ..
T Consensus        39 a~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~  118 (824)
T PRK07764         39 AYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLDVTEIDAASHGGVDDARELRERAFFAPAE  118 (824)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCcEEEecccccCCHHHHHHHHHHHHhchhc
Confidence            3789999999999999888765443221100011111111  11111122344455542   3333333322111   12


Q ss_pred             ccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCC
Q 028884          107 AAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL  151 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~  151 (202)
                      ...-||++|--+..+-.....+++.|..- ..++-+|++.|+.|.
T Consensus       119 ~~~KV~IIDEad~lt~~a~NaLLK~LEEp-P~~~~fIl~tt~~~k  162 (824)
T PRK07764        119 SRYKIFIIDEAHMVTPQGFNALLKIVEEP-PEHLKFIFATTEPDK  162 (824)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHHhCC-CCCeEEEEEeCChhh
Confidence            45567778766654444444444445432 223434555555553

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.91  E-value=0.0012  Score=48.47  Aligned_cols=25  Identities=20%  Similarity=0.332  Sum_probs=22.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +...|.|.|++|||||||++.|...
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            5689999999999999999998864

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.91  E-value=0.00086  Score=48.12  Aligned_cols=22  Identities=23%  Similarity=0.439  Sum_probs=19.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-|+|+|.+||||||+++.+..
T Consensus         4 ~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         4 KIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3688999999999999999874

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=96.89  E-value=0.0078  Score=44.53  Aligned_cols=102  Identities=18%  Similarity=0.219  Sum_probs=61.6

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCCh--hHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChH
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSP--DSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQ  160 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~  160 (202)
                      +.+.|+|+.|...  .+....+..+|.+|+=.-.+.-  +.-....+|+..+.+...+++|.-|+.|+...... .....
T Consensus        84 ~d~VlvDleG~as--~~~~~aia~sDlVlIP~~~s~lD~~eA~~t~~~v~~~~~~~~~~ip~~Vl~Tr~~~~~~-~~~~~  160 (231)
T PF07015_consen   84 FDFVLVDLEGGAS--ELNDYAIARSDLVLIPMQPSQLDADEAAKTFKWVRRLEKAERRDIPAAVLFTRVPAARL-TRAQR  160 (231)
T ss_pred             CCEEEEeCCCCCc--hhHHHHHHHCCEEEECCCCChHHHHHHHHHHHHHHHHHHhhCCCCCeeEEEecCCcchh-hHHHH
Confidence            5789999988542  2234445568999987777643  33334455666666656788999999999973311 11111


Q ss_pred             HHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          161 DGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       161 ~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      ....+..  +++++.+...+..-+.++|.
T Consensus       161 ~~~e~~~--~lpvl~t~l~eR~Af~~m~~  187 (231)
T PF07015_consen  161 IISEQLE--SLPVLDTELHERDAFRAMFS  187 (231)
T ss_pred             HHHHHHh--cCCccccccccHHHHHHHHH
Confidence            2222222  47777777666554444444

In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=96.89  E-value=0.0038  Score=44.37  Aligned_cols=25  Identities=28%  Similarity=0.353  Sum_probs=21.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .=.++++|+.|+|||||++.+.+..
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcc
Confidence            3468899999999999999998743

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.88  E-value=0.0014  Score=47.23  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=20.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .=|+|+|++|+|||||+++|...
T Consensus         5 ~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          5 KLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            45889999999999999999874

>PRK14532 adenylate kinase; Provisional

Probab=96.88  E-value=0.00092  Score=48.13  Aligned_cols=21  Identities=33%  Similarity=0.589  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +|+++|+|||||||+..+|..
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~   22 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVE   22 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999875

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.88  E-value=0.00095  Score=47.65  Aligned_cols=22  Identities=41%  Similarity=0.626  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -|+|+|++|+|||||++.|...
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHcc
Confidence            4789999999999999999874

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=96.87  E-value=0.005  Score=48.20  Aligned_cols=25  Identities=20%  Similarity=0.510  Sum_probs=22.5

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ...+|+|.|.+|+|||||++.|...
T Consensus       147 ~~~~ilI~G~tGSGKTTll~aL~~~  171 (319)
T PRK13894        147 AHRNILVIGGTGSGKTTLVNAIINE  171 (319)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHh
Confidence            4578999999999999999999974

>PRK13949 shikimate kinase; Provisional

Probab=96.85  E-value=0.0012  Score=46.87  Aligned_cols=22  Identities=27%  Similarity=0.518  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +|+|+|.+|+||||+.+.|...
T Consensus         3 ~I~liG~~GsGKstl~~~La~~   24 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARE   24 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999988753

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.85  E-value=0.0011  Score=43.08  Aligned_cols=22  Identities=36%  Similarity=0.818  Sum_probs=19.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHH
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFV   54 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~   54 (202)
                      .-.++++|++|+|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            3468999999999999999875

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.84  E-value=0.0034  Score=55.06  Aligned_cols=26  Identities=27%  Similarity=0.461  Sum_probs=21.2

Q ss_pred             ee-EEEEcCCCCcHHHHHHHHHhCCCC
Q 028884           34 VK-LVLLGDSGVGKSCIVLRFVRGQFD   59 (202)
Q Consensus        34 ~~-i~v~G~~~~GKSsli~~l~~~~~~   59 (202)
                      .+ ++|.|++|+||||+++.|......
T Consensus        38 ~HAyLFtGPpGtGKTTLARiLAk~Lnc   64 (944)
T PRK14949         38 HHAYLFTGTRGVGKTSLARLFAKGLNC   64 (944)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhccC
Confidence            44 489999999999999998875543

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=96.84  E-value=0.0059  Score=48.09  Aligned_cols=26  Identities=15%  Similarity=0.317  Sum_probs=22.8

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      ...+|+|.|.+|||||||++.|+..-
T Consensus       159 ~~~nili~G~tgSGKTTll~aL~~~i  184 (332)
T PRK13900        159 SKKNIIISGGTSTGKTTFTNAALREI  184 (332)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHhhC
Confidence            36799999999999999999998743

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=96.82  E-value=0.0015  Score=50.58  Aligned_cols=84  Identities=15%  Similarity=0.129  Sum_probs=48.5

Q ss_pred             EEEEEEeCCChhh--------h---hhccccccc-CccEEEEEEeCCCh-hHHHHHHHHHHHHHHcCCCCCeEEEEEeCC
Q 028884           83 VKFEIWDTAGQER--------Y---AALAPLYYR-GAAVAVVVYDITSP-DSFNKAQYWVKELQKHGSPDIVMALVGNKA  149 (202)
Q Consensus        83 ~~~~i~D~~G~~~--------~---~~~~~~~~~-~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~  149 (202)
                      +.+.++||.|+-.        .   ......... ..+=+++++|+.-+ +.+.+.+.|-+.+.      + --+++||.
T Consensus       222 ~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttGqnal~QAk~F~eav~------l-~GiIlTKl  294 (340)
T COG0552         222 IDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATTGQNALSQAKIFNEAVG------L-DGIILTKL  294 (340)
T ss_pred             CCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEcccChhHHHHHHHHHHhcC------C-ceEEEEec
Confidence            6899999999321        1   112222222 23447888899876 45566555533332      1 35678999


Q ss_pred             CCCCCCCCChHHHHHHHHHcCCeEEEec
Q 028884          150 DLHEKREVPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       150 D~~~~~~~~~~~~~~~~~~~~~~~~~~s  177 (202)
                      |....-    -.....+..+++|+.++-
T Consensus       295 DgtAKG----G~il~I~~~l~~PI~fiG  318 (340)
T COG0552         295 DGTAKG----GIILSIAYELGIPIKFIG  318 (340)
T ss_pred             ccCCCc----ceeeeHHHHhCCCEEEEe
Confidence            954321    123445667788877764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	202
2efc_B	181	Ara7-GdpATVPS9A Length = 181		3e-56
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		1e-54
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		2e-54
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		2e-54
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		3e-54
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		3e-54
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		4e-54
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		4e-54
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		4e-54
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		5e-54
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		6e-54
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		7e-54
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		1e-53
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		2e-53
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		2e-46
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		2e-45
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		3e-45
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		3e-45
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		3e-38
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		9e-38
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		2e-37
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		3e-37
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		3e-37
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		8e-37
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		1e-36
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		1e-36
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		2e-36
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		2e-36
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		2e-36
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		3e-36
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		4e-36
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		5e-36
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		5e-36
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		7e-36
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		7e-36
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		3e-35
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		3e-35
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		3e-35
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		5e-35
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		5e-35
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		1e-34
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		3e-34
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		3e-34
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		3e-34
4fmc_B	171	Espg-Rab1 Complex Length = 171		4e-34
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		4e-34
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		7e-34
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		8e-34
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		8e-34
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		8e-34
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		2e-33
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		2e-33
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		3e-33
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		3e-33
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		3e-33
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		3e-33
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		5e-33
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		5e-33
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		5e-33
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		6e-33
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		6e-33
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		7e-33
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		7e-33
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		1e-32
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		2e-32
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		4e-32
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		5e-32
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		3e-31
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		4e-31
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		1e-30
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		6e-30
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		6e-30
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		3e-29
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		3e-29
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		5e-29
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		7e-29
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		2e-28
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		2e-28
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		2e-27
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		2e-27
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		2e-26
1vg1_A	185	Gdp-bound Rab7 Length = 185		3e-26
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		6e-26
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		6e-26
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		7e-26
4fmc_F	117	Espg-Rab1 Complex Length = 117		1e-25
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		2e-25
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		2e-25
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		3e-25
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		4e-25
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		5e-25
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		1e-24
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		1e-24
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		3e-24
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		3e-24
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		9e-23
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		2e-22
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		2e-22
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		3e-22
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		4e-22
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		5e-22
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		5e-22
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		5e-22
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		5e-22
1s1c_A	183	Crystal Structure Of The Complex Between The Human		6e-22
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		6e-22
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		6e-22
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		6e-22
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		6e-21
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		6e-21
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		6e-21
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		6e-21
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		7e-21
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		7e-21
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		7e-21
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		8e-21
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		9e-21
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		9e-21
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		2e-20
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		5e-20
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		6e-20
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		7e-20
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		8e-20
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		2e-19
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		2e-19
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		3e-19
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		1e-18
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		2e-18
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		2e-18
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		2e-18
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		4e-18
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		5e-18
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		6e-18
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		7e-18
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		1e-17
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		1e-17
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		2e-17
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		3e-17
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		4e-17
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		6e-17
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		8e-17
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		1e-16
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		2e-16
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		2e-16
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		2e-16
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		2e-16
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		2e-16
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		2e-16
2bku_A	177	Kap95p:rangtp Complex Length = 177		2e-16
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		2e-16
1byu_A	216	Canine Gdp-Ran Length = 216		4e-16
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		4e-16
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		5e-16
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		5e-16
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		7e-16
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		7e-16
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		8e-16
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		9e-16
3icq_B	171	Karyopherin Nuclear State Length = 171		9e-16
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		9e-16
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		1e-15
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		1e-15
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		2e-15
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		2e-15
1mh1_A	186	Small G-Protein Length = 186		2e-14
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		2e-14
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		2e-14
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		2e-14
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		2e-14
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		2e-14
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		2e-14
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		3e-14
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		6e-14
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		7e-14
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		7e-14
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		2e-13
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		2e-13
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		2e-13
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		2e-13
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		2e-13
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		2e-13
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		2e-13
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		2e-13
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		2e-13
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		2e-13
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		2e-13
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		3e-13
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		3e-13
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		3e-13
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		3e-13
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		5e-13
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		5e-13
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		5e-13
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		5e-13
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		6e-13
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		1e-12
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		1e-12
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		1e-12
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		1e-12
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		1e-12
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		1e-12
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		1e-12
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		1e-12
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		2e-12
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		3e-12
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		3e-12
4q21_A	189	Molecular Switch For Signal Transduction: Structura		4e-12
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		4e-12
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		4e-12
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		4e-12
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		5e-12
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		5e-12
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		5e-12
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		5e-12
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		5e-12
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		5e-12
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		5e-12
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		5e-12
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		6e-12
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		6e-12
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		6e-12
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		6e-12
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		7e-12
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		7e-12
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		7e-12
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		7e-12
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		7e-12
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		8e-12
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		8e-12
1wq1_R	166	Ras-Rasgap Complex Length = 166		8e-12
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		8e-12
6q21_A	171	Molecular Switch For Signal Transduction: Structura		8e-12
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		8e-12
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		8e-12
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		1e-11
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		1e-11
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		1e-11
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		1e-11
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		1e-11
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		1e-11
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		1e-11
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		1e-11
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		1e-11
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		1e-11
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		1e-11
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		1e-11
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		2e-11
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		2e-11
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		2e-11
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		2e-11
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		2e-11
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-11
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-11
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		3e-11
2kb0_A	178	Cdc42(T35a) Length = 178		3e-11
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		3e-11
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		3e-11
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		4e-11
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		4e-11
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		5e-11
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		6e-11
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		6e-11
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		6e-11
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		6e-11
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		6e-11
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		6e-11
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		7e-11
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		8e-11
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		8e-11
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		8e-11
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		9e-11
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		1e-10
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		1e-10
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		1e-10
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		1e-10
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		3e-10
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		5e-10
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		5e-10
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		1e-09
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		2e-09
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		2e-09
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		4e-09
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		4e-09
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		6e-09
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		6e-09
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		3e-08
3cbq_A	195	Crystal Structure Of The Human Rem2 Gtpase With Bou		4e-08
4aii_A	180	Crystal Structure Of The Rat Rem2 Gtpase - G Domain		5e-08
3q85_A	169	Crystal Structure Of Rem2 G-Domain -Gtp Analog Comp		1e-07
3c5c_A	187	Crystal Structure Of Human Ras-Like, Family 12 Prot		1e-05
3lvr_E	497	The Crystal Structure Of Asap3 In Complex With Arf6		1e-05
2a5d_A	175	Structural Basis For The Activation Of Cholera Toxi		2e-05
1e0s_A	174	Small G Protein Arf6-Gdp Length = 174		2e-05
4fme_C	160	Espg-Rab1-Arf6 Complex Length = 160		4e-05
3n5c_A	162	Crystal Structure Of Arf6delta13 Complexed With Gdp		4e-05
3dpu_A	535	Roccor Domain Tandem Of Rab Family Protein (Roco) L		5e-05
3pcr_B	162	Structure Of Espg-Arf6 Complex Length = 162		1e-04
2a5g_A	175	Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length		1e-04
2w83_A	165	Crystal Structure Of The Arf6 Gtpase In Complex Wit		2e-04
3vhx_A	172	The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesi		2e-04
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		2e-04
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		3e-04
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		4e-04
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		4e-04
3rd1_A	178	Structure Of An Adp Ribosylation Factor From Entamo		9e-04

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score =  214 bits (545), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 98/172 (56%), Positives = 132/172 (76%), Gaps = 1/172 (0%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K++  KLVLLGD G GKS +VLRFV+ QF    + T+GA+F SQT+A+ D+T VKFEIWD
Sbjct: 9   KSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDAT-VKFEIWD 67
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKA 149
           TAGQERY +LAP+YYRG       +D+T+  SF +A+ WV+ELQ  G+P++VMAL GNK+
Sbjct: 68  TAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKS 127
Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPS 201
           DL + R+V A+D   YA++NG+FF+ETSAKTA N+ ++F EIA+RLPR  P+
Sbjct: 128 DLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPT 179

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score =  209 bits (531), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 100/174 (57%), Positives = 128/174 (73%), Gaps = 1/174 (0%)
Query: 27  SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFE 86
           S +K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+Q++ L D TTVKFE
Sbjct: 2   SASKICQFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCL-DDTTVKFE 60
Query: 87  IWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVG 146
           IWDTAGQERY +LAP+YYRG       YDIT+ ++F +A+ WVKELQ+  SP IV+AL G
Sbjct: 61  IWDTAGQERYHSLAPMYYRGAQAAIVVYDITNQETFARAKTWVKELQRQASPSIVIALAG 120
Query: 147 NKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSP 200
           NKADL  KR V  ++   YA+ N + F+ETSAKTA N+N LF  IAK+LP+  P
Sbjct: 121 NKADLANKRMVEYEEAQAYADDNSLLFMETSAKTAMNVNDLFLAIAKKLPKSEP 174

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score =  208 bits (529), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 99/168 (58%), Positives = 127/168 (75%), Gaps = 1/168 (0%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TTVKFEIWD
Sbjct: 4   KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCL-DDTTVKFEIWD 62
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKA 149
           TAGQERY +LAP+YYRG       YDIT+ +SF +A+ WVKELQ+  SP+IV+AL GNKA
Sbjct: 63  TAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKA 122
Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           DL  KR V  Q+   YA+ N + F+ETSAKT+ N+N++F  IAK+LP+
Sbjct: 123 DLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 170

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score =  208 bits (529), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 99/168 (58%), Positives = 127/168 (75%), Gaps = 1/168 (0%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TTVKFEIWD
Sbjct: 3   KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCL-DDTTVKFEIWD 61
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKA 149
           TAGQERY +LAP+YYRG       YDIT+ +SF +A+ WVKELQ+  SP+IV+AL GNKA
Sbjct: 62  TAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKA 121
Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           DL  KR V  Q+   YA+ N + F+ETSAKT+ N+N++F  IAK+LP+
Sbjct: 122 DLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score =  207 bits (527), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 98/163 (60%), Positives = 124/163 (76%), Gaps = 1/163 (0%)
Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TTVKFEIWDTAG
Sbjct: 3   QFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCL-DDTTVKFEIWDTAG 61
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           QERY +LAP+YYRG       YDIT+ D+F +A+ WVKELQ+  SP+IV+AL GNKADL 
Sbjct: 62  QERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLA 121
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            KR V  Q+   YA+ N + F+ETSAKTA N+N++F  IAK+L
Sbjct: 122 SKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 164

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  207 bits (527), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 99/168 (58%), Positives = 127/168 (75%), Gaps = 1/168 (0%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TTVKFEIWD
Sbjct: 3   KICQFKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCL-DDTTVKFEIWD 61
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKA 149
           TAGQERY +LAP+YYRG       YDIT+ +SF +A+ WVKELQ+  SP+IV+AL GNKA
Sbjct: 62  TAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKA 121
Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           DL  KR V  Q+   YA+ N + F+ETSAKT+ N+N++F  IAK+LP+
Sbjct: 122 DLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  207 bits (526), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 99/168 (58%), Positives = 127/168 (75%), Gaps = 1/168 (0%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TTVKFEIWD
Sbjct: 3   KICQFKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCL-DDTTVKFEIWD 61
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKA 149
           TAGQERY +LAP+YYRG       YDIT+ +SF +A+ WVKELQ+  SP+IV+AL GNKA
Sbjct: 62  TAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKA 121
Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           DL  KR V  Q+   YA+ N + F+ETSAKT+ N+N++F  IAK+LP+
Sbjct: 122 DLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score =  207 bits (526), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 98/164 (59%), Positives = 124/164 (75%), Gaps = 1/164 (0%)
Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TTVKFEIWDTAG
Sbjct: 5   QFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCL-DDTTVKFEIWDTAG 63
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
            ERY +LAP+YYRG       YDIT+ D+F +A+ WVKELQ+  SP+IV+AL GNKADL 
Sbjct: 64  LERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLA 123
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
            KR V  Q+   YA+ N + F+ETSAKTA N+N++F  IAK+LP
Sbjct: 124 SKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKLP 167

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  207 bits (526), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 99/168 (58%), Positives = 127/168 (75%), Gaps = 1/168 (0%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TTVKFEIWD
Sbjct: 3   KICQFKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCL-DDTTVKFEIWD 61
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKA 149
           TAGQERY +LAP+YYRG       YDIT+ +SF +A+ WVKELQ+  SP+IV+AL GNKA
Sbjct: 62  TAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKA 121
Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           DL  KR V  Q+   YA+ N + F+ETSAKT+ N+N++F  IAK+LP+
Sbjct: 122 DLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  206 bits (525), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 99/168 (58%), Positives = 127/168 (75%), Gaps = 1/168 (0%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TTVKFEIWD
Sbjct: 3   KICQFKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCL-DDTTVKFEIWD 61
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKA 149
           TAGQERY +LAP+YYRG       YDIT+ +SF +A+ WVKELQ+  SP+IV+AL GNKA
Sbjct: 62  TAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKA 121
Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           DL  KR V  Q+   YA+ N + F+ETSAKT+ N+N++F  IAK+LP+
Sbjct: 122 DLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score =  206 bits (524), Expect = 6e-54,   Method: Compositional matrix adjust.
 Identities = 99/168 (58%), Positives = 127/168 (75%), Gaps = 1/168 (0%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TTVKFEIWD
Sbjct: 3   KICQFKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCL-DDTTVKFEIWD 61
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKA 149
           TAGQERY +LAP+YYRG       YDIT+ +SF +A+ WVKELQ+  SP+IV+AL GNKA
Sbjct: 62  TAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKA 121
Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           DL  KR V  Q+   YA+ N + F+ETSAKT+ N+N++F  IAK+LP+
Sbjct: 122 DLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score =  206 bits (524), Expect = 7e-54,   Method: Compositional matrix adjust.
 Identities = 99/168 (58%), Positives = 125/168 (74%), Gaps = 1/168 (0%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TTVKFEIWD
Sbjct: 4   KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCL-DDTTVKFEIWD 62
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKA 149
           TAGQERY +LAP YYRG       YDIT+ +SF +A+ WVKELQ+  SP+IV+AL GNKA
Sbjct: 63  TAGQERYHSLAPXYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKA 122
Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           DL  KR V  Q+   YA+ N + F ETSAKT+ N+N++F  IAK+LP+
Sbjct: 123 DLANKRAVDFQEAQSYADDNSLLFXETSAKTSXNVNEIFXAIAKKLPK 170

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score =  205 bits (521), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 98/168 (58%), Positives = 126/168 (75%), Gaps = 1/168 (0%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TTVKFEIWD
Sbjct: 2   KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCL-DDTTVKFEIWD 60
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKA 149
           TAG ERY +LAP+YYRG       YDIT+ +SF +A+ WVKELQ+  SP+IV+AL GNKA
Sbjct: 61  TAGLERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKA 120
Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           DL  KR V  Q+   YA+ N + F+ETSAKT+ N+N++F  IAK+LP+
Sbjct: 121 DLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 168

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score =  204 bits (520), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 97/163 (59%), Positives = 123/163 (75%), Gaps = 1/163 (0%)
Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           + KLVLLG+S VGKS +VLRFV+GQF    + T+ A+FL+QT+ L D TTVKFEIWDTAG
Sbjct: 5   QFKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCL-DDTTVKFEIWDTAG 63
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           QERY +LAP+YYRG       YDIT+ D+F +A+ WVKELQ+  SP+IV+AL GNKADL 
Sbjct: 64  QERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLA 123
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            KR V  Q+   YA+ N + F+ETSAKTA N+N++F  IAK+L
Sbjct: 124 SKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score =  181 bits (459), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 86/163 (52%), Positives = 115/163 (70%), Gaps = 1/163 (0%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K+ LLGD+GVGKS IV RFV   FDP    T+GASF+++T+  Q+    KF IWDTAGQ
Sbjct: 6   LKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELH-KFLIWDTAGQ 64
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           ER+ ALAP+YYRG       YDIT  ++F+  + WV+EL++HG P IV+A+ GNK DL +
Sbjct: 65  ERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTD 124
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
            REV  +D  +YA+     F+ETSAK A NIN+LF EI++R+P
Sbjct: 125 VREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIP 167

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score =  178 bits (452), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 87/167 (52%), Positives = 114/167 (68%), Gaps = 1/167 (0%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K+ LLGD+GVGKS IV RFV+  FD     T+GASF+++T+   +    KF IWDTAGQ
Sbjct: 24  LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELH-KFLIWDTAGQ 82
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           ER+ +LAP+YYRG       YDIT  DSF   + WVKEL++HG  +IVMA+ GNK DL +
Sbjct: 83  ERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSD 142
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSP 200
            REVP +D  EYAE  G   +ETSAK A NI +LF+ I++++P   P
Sbjct: 143 IREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPPLDP 189

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score =  177 bits (450), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 87/166 (52%), Positives = 118/166 (71%), Gaps = 4/166 (2%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +KLVLLG++ VGKS IVLRFV   F    + T+GA+FL+Q + + + T VKFEIWDTAGQ
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHT-VKFEIWDTAGQ 62
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKAD-LH 152
           ER+A+LAP YYR        YD+T P SF KA++WVKEL +  S DI++ALVGNK D L 
Sbjct: 63  ERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQ 122
Query: 153 E--KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           E  +R+V  ++G + AE+ G+ F ETSAKT +N+N +F  I +++P
Sbjct: 123 EGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIP 168

>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 =  177 bits (449), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 84/163 (51%), Positives = 114/163 (69%), Gaps = 1/163 (0%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K+ LLGD+GVGKS I+ RFV   FDP    T+GASF+++T+  Q+    KF IWDTAG 
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELH-KFLIWDTAGL 65
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           ER+ ALAP+YYRG       YDIT  ++F+  + WV+EL++HG P IV+A+ GNK DL +
Sbjct: 66  ERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTD 125
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
            REV  +D  +YA+     F+ETSAK A NIN+LF EI++R+P
Sbjct: 126 VREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIP 168

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score =  154 bits (390), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 71/171 (41%), Positives = 110/171 (64%), Gaps = 1/171 (0%)
Query: 25  GSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVK 84
           GS +  +   K+VL+G++GVGK+C+V RF +G F P    T+G  F+ +T+ + +   VK
Sbjct: 18  GSMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEI-NGEKVK 76
Query: 85  FEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMAL 144
            +IWDTAGQER+ ++   YYR        YDIT  +SF     W++E++++ S  ++  L
Sbjct: 77  LQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVL 136
Query: 145 VGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           VGNK DL E+REV  Q   E++E   M+++ETSAK +DN+ +LF ++A RL
Sbjct: 137 VGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRL 187

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score =  152 bits (385), Expect = 9e-38,   Method: Compositional matrix adjust.
 Identities = 74/163 (45%), Positives = 103/163 (63%), Gaps = 1/163 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VL+GDSGVGKS ++ RF R +F+  SK T+G  F +++I + D  T+K +IWDTAGQE
Sbjct: 22  KVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAGQE 80
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY A+   YYRG       YDI    ++   + W+KEL+ H   +IV+ LVGNK+DL   
Sbjct: 81  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 140
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           R VP  +   +AEKNG+ FIETSA  + N+   F+ I   + R
Sbjct: 141 RAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYR 183

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score =  151 bits (381), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 75/171 (43%), Positives = 105/171 (61%), Gaps = 1/171 (0%)
Query: 27  SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFE 86
           SD  +   K+VL+GDSGVGKS ++ RF R +F+  SK T+G  F +++I + D  T+K +
Sbjct: 2   SDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQ 60
Query: 87  IWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVG 146
           IWDTAG ERY A+   YYRG       YDI    ++   + W+KEL+ H   +IV+ LVG
Sbjct: 61  IWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVG 120
Query: 147 NKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           NK+DL   R VP  +   +AEKNG+ FIETSA  + N+   F+ I   + R
Sbjct: 121 NKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYR 171

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score =  151 bits (381), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 74/161 (45%), Positives = 104/161 (64%), Gaps = 4/161 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VL+GDSGVGKS ++ RF R +F+  SK T+G  F +++I L+++  +K +IWDTAGQE
Sbjct: 9   KIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWDTAGQE 68
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY A+   YYRG       YDIT  +SF   + W+KEL+ +   +IV+ LVGNK+DL   
Sbjct: 69  RYRAITSAYYRGAVGALLVYDITKKNSFENIEKWLKELRDNADSNIVILLVGNKSDLKHL 128
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNI----NQLFEEI 191
           R +   D  +YA+K  + FIETSA  A N+    +QL  EI
Sbjct: 129 RVINDNDATQYAKKEKLAFIETSALEATNVELAFHQLLNEI 169

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score =  151 bits (381), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 74/164 (45%), Positives = 103/164 (62%), Gaps = 1/164 (0%)
Query: 28  DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEI 87
           D  +   K+VL+GDSGVGKS ++ RF R +F+  SK T+G  F +++I + D  T+K +I
Sbjct: 24  DEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQI 82
Query: 88  WDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGN 147
           WDTAGQERY A+   YYRG       YDI    ++   + W+KEL+ H   +IV+ LVGN
Sbjct: 83  WDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 142
Query: 148 KADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
           K+DL   R VP  +   +AEKNG+ FIETSA  + N+   F+ I
Sbjct: 143 KSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 186

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score =  149 bits (377), Expect = 8e-37,   Method: Compositional matrix adjust.
 Identities = 65/161 (40%), Positives = 106/161 (65%), Gaps = 1/161 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K +++GD+GVGKSC++L+F   +F P   +T+G  F ++ I + D   +K +IWDTAGQE
Sbjct: 12  KYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITI-DGKQIKLQIWDTAGQE 70
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
            + ++   YYRG       YDIT  D+FN    W+++ ++H + ++V+ L+GNK+DL  +
Sbjct: 71  SFRSITRSYYRGAAGALLVYDITRRDTFNHLTTWLEDARQHSNSNMVIMLIGNKSDLESR 130
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           REV  ++G  +A ++G+ F+ETSAKTA N+ + F   AK +
Sbjct: 131 REVKKEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEI 171

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score =  149 bits (376), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 69/164 (42%), Positives = 105/164 (64%), Gaps = 1/164 (0%)
Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           + KLV LG+  VGK+ ++ RF+   FD T + T+G  FLS+T+ L+D T V+ ++WDTAG
Sbjct: 14  KFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRT-VRLQLWDTAG 72
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           QER+ +L P Y R        YDIT+ +SF++   W+ +++     D+++ LVGNK DL 
Sbjct: 73  QERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLS 132
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           +KR+V  ++G   A++  + FIETSAK   N+ QLF  +A  LP
Sbjct: 133 DKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP 176

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score =  149 bits (375), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 72/163 (44%), Positives = 102/163 (62%), Gaps = 1/163 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VL+GDSGVGKS ++ RF R +F+  SK T+G  F +++I + D  T+K +IWDTAGQE
Sbjct: 7   KVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAGQE 65
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY  +   YYRG       YDI    ++   + W+KEL+ H   +IV+ LVGNK+DL   
Sbjct: 66  RYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 125
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           R VP  +   +AEKN + FIETSA  + N+ + F+ I   + R
Sbjct: 126 RAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYR 168

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score =  148 bits (374), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 73/164 (44%), Positives = 102/164 (62%), Gaps = 1/164 (0%)
Query: 28  DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEI 87
           D  +   K+VL+GDSGVGKS ++ RF R +F+  SK T+G  F +++I + D  T+K +I
Sbjct: 6   DEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQI 64
Query: 88  WDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGN 147
           WDTAG ERY A+   YYRG       YDI    ++   + W+KEL+ H   +IV+ LVGN
Sbjct: 65  WDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGN 124
Query: 148 KADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
           K+DL   R VP  +   +AEKNG+ FIETSA  + N+   F+ I
Sbjct: 125 KSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 168

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score =  148 bits (373), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 73/164 (44%), Positives = 102/164 (62%), Gaps = 1/164 (0%)
Query: 28  DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEI 87
           D  +   K+VL+GDSGVGKS ++ RF R +F+  SK T+G  F +++I + D  T+K +I
Sbjct: 24  DEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQI 82
Query: 88  WDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGN 147
           WDTAG ERY A+   YYRG       YDI    ++   + W+KEL+ H   +IV+ LVGN
Sbjct: 83  WDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 142
Query: 148 KADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
           K+DL   R VP  +   +AEKNG+ FIETSA  + N+   F+ I
Sbjct: 143 KSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 186

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score =  148 bits (373), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 72/157 (45%), Positives = 100/157 (63%), Gaps = 1/157 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VL+GDSGVGKS ++ RF R +F+  SK T+G  F +++I + D  T+K +IWDTAG E
Sbjct: 7   KVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAGLE 65
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY A+   YYRG       YDI    ++   + W+KEL+ H   +IV+ LVGNK+DL   
Sbjct: 66  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLRHL 125
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
           R VP  +   +AEKNG+ FIETSA  + N+   F+ I
Sbjct: 126 RAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 162

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score =  147 bits (372), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 72/171 (42%), Positives = 105/171 (61%), Gaps = 2/171 (1%)
Query: 25  GSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVK 84
           GS D  N   K+VL+G+SGVGK+ ++ RF R +F   S+ T+G  F ++T+ L  +  VK
Sbjct: 18  GSED-YNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVML-GTAAVK 75
Query: 85  FEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMAL 144
            +IWDTAG ERY A+   YYRG       +D+T   ++   + W+KEL  H    IV+ L
Sbjct: 76  AQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVML 135
Query: 145 VGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           VGNK+DL + REVP ++   +AE NG+ F+ETSA  + N+   FE + K +
Sbjct: 136 VGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEI 186

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score =  147 bits (371), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 71/163 (43%), Positives = 104/163 (63%), Gaps = 1/163 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGKSC++LRF    +  +   T+G  F  +TI+L++ T VK +IWDTAGQE
Sbjct: 11  KLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKT-VKLQIWDTAGQE 69
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+T  DSF+  + W++E+ ++   ++   LVGNK DL  K
Sbjct: 70  RFRTITSSYYRGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVGNKCDLVSK 129
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           R V + +G E A+ +G+ FIETSAK A N+ Q F  +A  + +
Sbjct: 130 RVVTSDEGRELADSHGIKFIETSAKNAYNVEQAFHTMAGEIKK 172

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score =  147 bits (370), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 68/163 (41%), Positives = 105/163 (64%), Gaps = 1/163 (0%)
Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           + KLV LG+  VGK+ ++ RF+   FD T + T+G  FLS+T+ L+D T V+ ++WDTAG
Sbjct: 2   KFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRT-VRLQLWDTAG 60
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           QER+ +L P Y R        YDIT+ +SF +   W+ +++     D+++ LVGNK DL 
Sbjct: 61  QERFRSLIPSYIRDSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGNKTDLA 120
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           +KR++  ++G + A++  + FIETSAKT  N+ QLF  +A  L
Sbjct: 121 DKRQITIEEGEQRAKELSVMFIETSAKTGYNVKQLFRRVASAL 163

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score =  147 bits (370), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 69/165 (41%), Positives = 102/165 (61%), Gaps = 1/165 (0%)
Query: 31  NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           N   K+VL+G+SGVGK+ ++ RF R +F   S+ T+G  F ++T+ L  +  VK +IWDT
Sbjct: 8   NFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVML-GTAAVKAQIWDT 66
Query: 91  AGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKAD 150
           AG ERY A+   YYRG       +D+T   ++   + W+KEL  H    IV+ LVGNK+D
Sbjct: 67  AGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSD 126
Query: 151 LHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           L + REVP ++   +AE NG+ F+ETSA  + N+   FE + K +
Sbjct: 127 LSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEI 171

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score =  146 bits (369), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 68/164 (41%), Positives = 104/164 (63%), Gaps = 1/164 (0%)
Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           + KLV LG+  VGK+ ++ RF+   FD T + T+G  FLS+T+ L+D T ++ ++WDTAG
Sbjct: 6   KFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRT-IRLQLWDTAG 64
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           QER+ +L P Y R        YDIT+ +SF +   W+ +++     D+++ LVGNK DL 
Sbjct: 65  QERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLA 124
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           +KR+V  ++G   A++  + FIETSAK   N+ QLF  +A  LP
Sbjct: 125 DKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP 168

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score =  146 bits (369), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 64/164 (39%), Positives = 107/164 (65%), Gaps = 1/164 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K +++GD+GVGKSC++L+F   +F P   +T+G  F ++ + + D   +K +IWDTAGQE
Sbjct: 23  KYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNI-DGKQIKLQIWDTAGQE 81
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
            + ++   YYRG       YDIT  ++FN    W+++ ++H S ++V+ L+GNK+DL  +
Sbjct: 82  SFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESR 141
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRP 198
           R+V  ++G  +A ++G+ F+ETSAKTA N+ + F   AK + R 
Sbjct: 142 RDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRK 185

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score =  144 bits (364), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 64/161 (39%), Positives = 105/161 (65%), Gaps = 1/161 (0%)
Query: 31  NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           +L  K+VL+GDSGVGKS ++ RF + +F+  SK T+G  F ++T+ ++    +K +IWDT
Sbjct: 11  DLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIE-GKRIKAQIWDT 69
Query: 91  AGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKAD 150
           AGQERY A+   YYRG       YDI+   S+    +W+ EL+++   ++ + L+GNK+D
Sbjct: 70  AGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSD 129
Query: 151 LHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
           L   R VP ++   +A++N + F ETSA  ++N+++ FEE+
Sbjct: 130 LAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEEL 170

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score =  144 bits (364), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 68/164 (41%), Positives = 103/164 (62%), Gaps = 1/164 (0%)
Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           + KLV LG+  VGK+ ++ RF+   FD T + T+G  FLS+T+ L+D T V+ ++WDTAG
Sbjct: 6   KFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRT-VRLQLWDTAG 64
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
            ER+ +L P Y R        YDIT+ +SF +   W+ +++     D+++ LVGNK DL 
Sbjct: 65  LERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLA 124
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           +KR+V  ++G   A++  + FIETSAK   N+ QLF  +A  LP
Sbjct: 125 DKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP 168

>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 =  144 bits (363), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 68/163 (41%), Positives = 103/163 (63%), Gaps = 1/163 (0%)
Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           + KLV LG+  VGK+ ++ RF+   FD T + T+G  FLS+T+ L+D T V+ ++WDTAG
Sbjct: 1   KFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRT-VRLQLWDTAG 59
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           QER+ +L P Y R        YDIT+ +SF +   W+ +++     D+++ LVGNK DL 
Sbjct: 60  QERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLA 119
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           +KR+V  ++G   A++  + FIETSAK   N+ QLF  +A  L
Sbjct: 120 DKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 162

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score =  144 bits (362), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 68/164 (41%), Positives = 103/164 (62%), Gaps = 1/164 (0%)
Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           + KLV LG+  VGK+ ++ RF+   FD T + T+G  FLS+T+ L+D T V+ ++WDTAG
Sbjct: 16  KFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRT-VRLQLWDTAG 74
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
            ER+ +L P Y R        YDIT+ +SF +   W+ +++     D+++ LVGNK DL 
Sbjct: 75  LERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLA 134
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           +KR+V  ++G   A++  + FIETSAK   N+ QLF  +A  LP
Sbjct: 135 DKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP 178

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score =  143 bits (361), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 67/164 (40%), Positives = 103/164 (62%), Gaps = 1/164 (0%)
Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           + KLV LG+  VGK+ ++ RF+   FD T + T+G  FLS+T+ L+D T ++ ++WDTAG
Sbjct: 13  KFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRT-IRLQLWDTAG 71
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
            ER+ +L P Y R        YDIT+ +SF +   W+ +++     D+++ LVGNK DL 
Sbjct: 72  LERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLA 131
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           +KR+V  ++G   A++  + FIETSAK   N+ QLF  +A  LP
Sbjct: 132 DKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP 175

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score =  142 bits (359), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 72/163 (44%), Positives = 101/163 (61%), Gaps = 3/163 (1%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K++++G+SGVGKS ++LRF    FDP    T+G  F  +TI++ D    K  IWDTAGQ
Sbjct: 16  LKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISV-DGNKAKLAIWDTAGQ 74
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGS-PDIVMALVGNKADLH 152
           ER+  L P YYRG       YD+T  D+F K   W+ EL+ + +  DIV  LVGNK D  
Sbjct: 75  ERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNXLVGNKID-K 133
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           E REV   +G+++A K+   FIE SAKT D +   FEE+ +++
Sbjct: 134 ENREVDRNEGLKFARKHSXLFIEASAKTCDGVQCAFEELVEKI 176

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score =  141 bits (355), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 72/165 (43%), Positives = 101/165 (61%), Gaps = 5/165 (3%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGKSC++LRF    +  +   T+G  F  +TI L D  T+K +IWDTAGQE
Sbjct: 1   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQE 59
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+T  +SFN  + W++E+ ++ S ++   LVGNK DL  K
Sbjct: 60  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 119
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLF----EEIAKRL 195
           + V      E+A+  G+ F+ETSAK A N+ Q F     EI KR+
Sbjct: 120 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 164

>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 =  141 bits (355), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 72/165 (43%), Positives = 101/165 (61%), Gaps = 5/165 (3%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGKSC++LRF    +  +   T+G  F  +TI L D  T+K +IWDTAGQE
Sbjct: 18  KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQE 76
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+T  +SFN  + W++E+ ++ S ++   LVGNK DL  K
Sbjct: 77  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 136
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLF----EEIAKRL 195
           + V      E+A+  G+ F+ETSAK A N+ Q F     EI KR+
Sbjct: 137 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 181

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score =  140 bits (354), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 72/165 (43%), Positives = 101/165 (61%), Gaps = 5/165 (3%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGKSC++LRF    +  +   T+G  F  +TI L D  T+K +IWDTAGQE
Sbjct: 8   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQE 66
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+T  +SFN  + W++E+ ++ S ++   LVGNK DL  K
Sbjct: 67  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 126
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLF----EEIAKRL 195
           + V      E+A+  G+ F+ETSAK A N+ Q F     EI KR+
Sbjct: 127 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 171

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score =  140 bits (354), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 72/165 (43%), Positives = 101/165 (61%), Gaps = 5/165 (3%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGKSC++LRF    +  +   T+G  F  +TI L D  T+K +IWDTAGQE
Sbjct: 8   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQE 66
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+T  +SFN  + W++E+ ++ S ++   LVGNK DL  K
Sbjct: 67  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 126
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLF----EEIAKRL 195
           + V      E+A+  G+ F+ETSAK A N+ Q F     EI KR+
Sbjct: 127 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 171

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score =  140 bits (354), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 72/165 (43%), Positives = 101/165 (61%), Gaps = 5/165 (3%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGKSC++LRF    +  +   T+G  F  +TI L D  T+K +IWDTAGQE
Sbjct: 27  KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQE 85
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+T  +SFN  + W++E+ ++ S ++   LVGNK DL  K
Sbjct: 86  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 145
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLF----EEIAKRL 195
           + V      E+A+  G+ F+ETSAK A N+ Q F     EI KR+
Sbjct: 146 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 190

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score =  140 bits (352), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 71/161 (44%), Positives = 97/161 (60%), Gaps = 1/161 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VLLG+  VGK+ +VLR+   +F+     T+GASFL++ + +     V   IWDTAGQE
Sbjct: 8   KVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNI-GGKRVNLAIWDTAGQE 66
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ AL P+YYR        YDIT  DSF K + WVKEL+K    +I + +VGNK DL ++
Sbjct: 67  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE 126
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R V  Q+   YAE  G     TSAK    I +LF ++ KR+
Sbjct: 127 RHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRM 167

>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 =  139 bits (351), Expect = 8e-34,   Method: Compositional matrix adjust.
 Identities = 71/165 (43%), Positives = 101/165 (61%), Gaps = 5/165 (3%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGK+C++LRF    +  +   T+G  F  +TI L D  T+K +IWDTAGQE
Sbjct: 18  KLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQE 76
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+T  +SFN  + W++E+ ++ S ++   LVGNK DL  K
Sbjct: 77  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 136
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLF----EEIAKRL 195
           + V      E+A+  G+ F+ETSAK A N+ Q F     EI KR+
Sbjct: 137 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 181

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score =  139 bits (351), Expect = 8e-34,   Method: Compositional matrix adjust.
 Identities = 72/164 (43%), Positives = 100/164 (60%), Gaps = 5/164 (3%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGKSC++LRF    +  +   T+G  F  +TI L D  T+K +IWDTAGQE
Sbjct: 35  KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQE 93
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+T  +SFN  + W++E+ ++ S ++   LVGNK DL  K
Sbjct: 94  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 153
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE----EIAKR 194
           + V      E+A+  G+ F+ETSAK A N+ Q F     EI KR
Sbjct: 154 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFXTXAAEIKKR 197

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score =  139 bits (351), Expect = 8e-34,   Method: Compositional matrix adjust.
 Identities = 69/169 (40%), Positives = 106/169 (62%), Gaps = 2/169 (1%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K++L+GDSGVGKSC+++RFV  +F+P+   T+G  F  +T+ + +   VK +IWDTAGQ
Sbjct: 4   MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQIWDTAGQ 62
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           ER+  +   YYRG       YDIT   +F   + W K + +H + +  + LVGNK+D+ E
Sbjct: 63  ERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-E 121
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
            R V A  G   A++ G+ FIE+SAK  DN+N++F  +AK +     S+
Sbjct: 122 TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSN 170

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score =  138 bits (348), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 64/157 (40%), Positives = 99/157 (63%), Gaps = 1/157 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VL+GDSGVGKS ++ RF   +F+  SK T+G  F ++TI +++   +K +IWDTAG E
Sbjct: 12  KIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKK-IKAQIWDTAGLE 70
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY A+   YYRG       YDI+   S+    +W+ EL+++   ++ + L+GNK+DL   
Sbjct: 71  RYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLTELRENADDNVAVGLIGNKSDLAHL 130
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
           R VP  +   +A +N M F ETSA  +DN+++ F E+
Sbjct: 131 RAVPTDEAKNFAMENQMLFTETSALNSDNVDKAFREL 167

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score =  138 bits (348), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 67/169 (39%), Positives = 106/169 (62%), Gaps = 2/169 (1%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K++L+GDSGVGKSC+++RFV  +F+P+   T+G  F  +T+ + +   VK ++WDTAGQ
Sbjct: 21  MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQLWDTAGQ 79
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           ER+  +   YYRG       YD+T   +F   + W K + +H + +  + LVGNK+D+ E
Sbjct: 80  ERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-E 138
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
            R V A  G   A++ G+ FIE+SAK  DN+N++F  +AK +     S+
Sbjct: 139 TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSN 187

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  137 bits (346), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 65/162 (40%), Positives = 100/162 (61%), Gaps = 1/162 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGK+C++ RF    F+ T   T+G  F  +TI L D   +K +IWDTAGQE
Sbjct: 8   KLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIEL-DGKRIKLQIWDTAGQE 66
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YDIT+  SF+  + W++ +++H S D+   ++GNK D+++K
Sbjct: 67  RFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDK 126
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           R+V  + G + A   G+ F+ETSAK   N+   F  +A+ + 
Sbjct: 127 RQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIK 168

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  137 bits (346), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 65/162 (40%), Positives = 100/162 (61%), Gaps = 1/162 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGK+C++ RF    F+ T   T+G  F  +TI L D   +K +IWDTAGQE
Sbjct: 10  KLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIEL-DGKRIKLQIWDTAGQE 68
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YDIT+  SF+  + W++ +++H S D+   ++GNK D+++K
Sbjct: 69  RFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDK 128
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           R+V  + G + A   G+ F+ETSAK   N+   F  +A+ + 
Sbjct: 129 RQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIK 170

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score =  137 bits (346), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 67/169 (39%), Positives = 106/169 (62%), Gaps = 2/169 (1%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K++L+GDSGVGKSC+++RFV  +F+P+   T+G  F  +T+ + +   VK ++WDTAGQ
Sbjct: 8   MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQLWDTAGQ 66
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           ER+  +   YYRG       YD+T   +F   + W K + +H + +  + LVGNK+D+ E
Sbjct: 67  ERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-E 125
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
            R V A  G   A++ G+ FIE+SAK  DN+N++F  +AK +     S+
Sbjct: 126 TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSN 174

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score =  137 bits (346), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 70/168 (41%), Positives = 105/168 (62%), Gaps = 2/168 (1%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++L+GDSGVGKSC+++RFV  +F+P+   T+G  F  +T+ + +   VK +IWDTAGQE
Sbjct: 5   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQIWDTAGQE 63
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YDIT   +F   + W K + +H + +  + LVGNK+D  E 
Sbjct: 64  RFRTITTAYYRGAXGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD-XET 122
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
           R V A  G   A++ G+ FIE+SAK  DN+N++F  +AK +     S+
Sbjct: 123 RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSN 170

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score =  137 bits (344), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 71/165 (43%), Positives = 100/165 (60%), Gaps = 5/165 (3%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGKSC++LRF    +  +   T+G  F  +TI L D  T+K +IWDTAGQE
Sbjct: 10  KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQE 68
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+T  +SFN  + W++E+ ++ S ++   LVG K DL  K
Sbjct: 69  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGIKCDLTTK 128
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLF----EEIAKRL 195
           + V      E+A+  G+ F+ETSAK A N+ Q F     EI KR+
Sbjct: 129 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 173

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score =  137 bits (344), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 70/161 (43%), Positives = 96/161 (59%), Gaps = 1/161 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VLLG+  VGK+ +VLR+   +F+     T+ ASFL++ + +     V   IWDTAGQE
Sbjct: 22  KVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNI-GGKRVNLAIWDTAGQE 80
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ AL P+YYR        YDIT  DSF K + WVKEL+K    +I + +VGNK DL ++
Sbjct: 81  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE 140
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R V  Q+   YAE  G     TSAK    I +LF ++ KR+
Sbjct: 141 RHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRM 181

>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 =  137 bits (344), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 70/165 (42%), Positives = 101/165 (61%), Gaps = 5/165 (3%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGKSC++LRF    +  +   T+G  F  +TI L D  T+K +IWDTAGQE
Sbjct: 11  KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQE 69
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+T  +S+   + W++E+ ++ S ++   LVGNK+DL  K
Sbjct: 70  RFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTTK 129
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLF----EEIAKRL 195
           + V      E+A+  G+ F+ETSAK A N+ Q F     EI KR+
Sbjct: 130 KVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRM 174

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score =  137 bits (344), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 70/161 (43%), Positives = 96/161 (59%), Gaps = 1/161 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VLLG+  VGK+ +VLR+   +F+     T+ ASFL++ + +     V   IWDTAGQE
Sbjct: 8   KVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNI-GGKRVNLAIWDTAGQE 66
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ AL P+YYR        YDIT  DSF K + WVKEL+K    +I + +VGNK DL ++
Sbjct: 67  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE 126
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R V  Q+   YAE  G     TSAK    I +LF ++ KR+
Sbjct: 127 RHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRM 167

>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 =  137 bits (344), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 70/165 (42%), Positives = 101/165 (61%), Gaps = 5/165 (3%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGKSC++LRF    +  +   T+G  F  +TI L D  T+K +IWDTAGQE
Sbjct: 11  KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQE 69
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+T  +S+   + W++E+ ++ S ++   LVGNK+DL  K
Sbjct: 70  RFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTTK 129
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLF----EEIAKRL 195
           + V      E+A+  G+ F+ETSAK A N+ Q F     EI KR+
Sbjct: 130 KVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRM 174

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score =  136 bits (343), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 66/164 (40%), Positives = 99/164 (60%), Gaps = 1/164 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+G+SGVGKSC++LRF    +      T+G  F  +T+ L D  TVK +IWDTAGQE
Sbjct: 10  KLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL-DGKTVKLQIWDTAGQE 68
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+T  +SFN  + W++E+ ++ +  ++  LVGNK DL +K
Sbjct: 69  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK 128
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRP 198
           R V      E+A+ N M F+ETSA  + N+   F  +A+++   
Sbjct: 129 RVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKES 172

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score =  136 bits (343), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 66/164 (40%), Positives = 99/164 (60%), Gaps = 1/164 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+G+SGVGKSC++LRF    +      T+G  F  +T+ L D  TVK +IWDTAGQE
Sbjct: 10  KLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL-DGKTVKLQIWDTAGQE 68
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+T  +SFN  + W++E+ ++ +  ++  LVGNK DL +K
Sbjct: 69  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK 128
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRP 198
           R V      E+A+ N M F+ETSA  + N+   F  +A+++   
Sbjct: 129 RVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKES 172

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score =  135 bits (341), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 68/168 (40%), Positives = 105/168 (62%), Gaps = 2/168 (1%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++L+GDSGVGKSC+++RFV  +F+P+   T+G  F  +T+ + +   VK ++WDTAGQE
Sbjct: 5   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQLWDTAGQE 63
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+T   +F   + W K + +H + +  + LVGNK+D  E 
Sbjct: 64  RFRTITTAYYRGAXGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD-XET 122
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
           R V A  G   A++ G+ FIE+SAK  DN+N++F  +AK +     S+
Sbjct: 123 RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSN 170

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score =  135 bits (340), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 66/162 (40%), Positives = 99/162 (61%), Gaps = 1/162 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+G+SGVGKSC++LRF    +      T+G  F  +T+ L D  TVK +IWDTAGQE
Sbjct: 23  KLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL-DGKTVKLQIWDTAGQE 81
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+T  +SFN  + W++E+ ++ +  ++  LVGNK DL +K
Sbjct: 82  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK 141
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           R V      E+A+ N M F+ETSA  + N+   F  +A+++ 
Sbjct: 142 RVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIK 183

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  134 bits (337), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 68/173 (39%), Positives = 107/173 (61%), Gaps = 2/173 (1%)
Query: 28  DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGASFLSQTIALQDSTTVKFE 86
           D  ++  K++L+GDSGVGK+C+++RF  G F   + + TVG  F ++ + + D   VK +
Sbjct: 5   DFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDV-DGVKVKLQ 63
Query: 87  IWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVG 146
           +WDTAGQER+ ++   YYR        YD+T+  SF+  Q W+ E+ ++   D+ + L+G
Sbjct: 64  MWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLG 123
Query: 147 NKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPS 199
           NK D   +R V  +DG + A++ G+ F+ETSAKT  N++  F  IAK L R S
Sbjct: 124 NKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRS 176

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score =  134 bits (336), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 62/161 (38%), Positives = 99/161 (61%), Gaps = 1/161 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K +++GD GVGKSC++ +F   +F      T+G  F ++ I +     +K +IWDTAGQE
Sbjct: 17  KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-SGQKIKLQIWDTAGQE 75
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ A+   YYRG       YDIT   ++N    W+ + +   +P+ V+ L+GNKADL  +
Sbjct: 76  RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQ 135
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R+V  ++  ++AE+NG+ F+E SAKT +N+   F E AK++
Sbjct: 136 RDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 176

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score =  131 bits (329), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 66/163 (40%), Positives = 97/163 (59%), Gaps = 1/163 (0%)
Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           + KLV LG+  VGK+ I+ RF    FD   + T+G  FLS+T+ L D   V+ ++WDTAG
Sbjct: 1   KYKLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYL-DEGPVRLQLWDTAG 59
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           QER+ +L P Y R        YDIT+  SF     W++++      D+++ALVGNK DL 
Sbjct: 60  QERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLG 119
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           + R+V  ++G + A++    F ETSAK   NI  LF++ A +L
Sbjct: 120 DLRKVTYEEGXQKAQEYNTXFHETSAKAGHNIKVLFKKTASKL 162

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score =  130 bits (328), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 61/161 (37%), Positives = 98/161 (60%), Gaps = 1/161 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K +++GD GVGKSC++ +F   +F      T+G  F ++ I +     +K +IWDTAGQ 
Sbjct: 32  KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-SGQKIKLQIWDTAGQG 90
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ A+   YYRG       YDIT   ++N    W+ + +   +P+ V+ L+GNKADL  +
Sbjct: 91  RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQ 150
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R+V  ++  ++AE+NG+ F+E SAKT +N+   F E AK++
Sbjct: 151 RDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 191

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score =  129 bits (324), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 61/161 (37%), Positives = 99/161 (61%), Gaps = 1/161 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K +++G +G GKSC++ +F+  +F   S  T+G  F S+ + +    TVK +IWDTAGQE
Sbjct: 27  KFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNV-GGKTVKLQIWDTAGQE 85
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ ++   YYRG       YDITS +++N    W+ + +   SP+IV+ L GNK DL  +
Sbjct: 86  RFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPE 145
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           REV   +   +A++N + F+ETSA T +N+ + F + A+ +
Sbjct: 146 REVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTI 186

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score =  127 bits (318), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 66/162 (40%), Positives = 93/162 (57%), Gaps = 2/162 (1%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLVL+GD+ VGK+C+V RF  G F      T+G  F  +T+ +Q    VK +IWDTAGQE
Sbjct: 31  KLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQ-GKRVKLQIWDTAGQE 89
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYR        YDIT   SF    +W+++++K+   +IV  L+GNK+DL E 
Sbjct: 90  RFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSEL 149
Query: 155 REVPAQDGIEYAEKNGMFF-IETSAKTADNINQLFEEIAKRL 195
           REV   +    AE   +   IETSAK + N+ + F  +A  L
Sbjct: 150 REVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATEL 191

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score =  126 bits (317), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 62/175 (35%), Positives = 102/175 (58%), Gaps = 1/175 (0%)
Query: 27  SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFE 86
           S+  +   K +++G++G GKSC++ +F+  +F   S  T+G  F S+ I +     VK +
Sbjct: 4   SETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV-GGKYVKLQ 62
Query: 87  IWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVG 146
           IWDTAGQER+ ++   YYRG       YDITS +++N    W+ + +   S +IV+ L G
Sbjct: 63  IWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCG 122
Query: 147 NKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPS 201
           NK DL   REV   +   +A++N + F+ETSA T +N+ + F + A+++     S
Sbjct: 123 NKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIES 177

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score =  124 bits (311), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 68/199 (34%), Positives = 104/199 (52%), Gaps = 39/199 (19%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIAL----------------- 77
           K VLLG+S VGKS IVLR  +  F   +  T+GASF +  + L                 
Sbjct: 9   KTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNI 68
Query: 78  -------------------QDSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITS 118
                              ++   +KF+IWDTAGQERYA++ PLYYRG       +DI++
Sbjct: 69  NSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISN 128
Query: 119 PDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSA 178
            ++ ++A+ WV +L+   S + ++ LV NK D   K +V   +  +YA+ N + FI+TSA
Sbjct: 129 SNTLDRAKTWVNQLKI--SSNYIIILVANKID-KNKFQVDILEVQKYAQDNNLLFIQTSA 185
Query: 179 KTADNINQLFEEIAKRLPR 197
           KT  NI  +F  +A+ + +
Sbjct: 186 KTGTNIKNIFYMLAEEIYK 204

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score =  124 bits (311), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 60/169 (35%), Positives = 101/169 (59%), Gaps = 1/169 (0%)
Query: 27  SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFE 86
           S+  +   K +++G++G GKSC++ +F+  +F   S  T+G  F S+ I +     VK +
Sbjct: 5   SETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV-GGKYVKLQ 63
Query: 87  IWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVG 146
           IWDTAGQER+ ++   YYRG       YDITS +++N    W+ + +   S +IV+ L G
Sbjct: 64  IWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCG 123
Query: 147 NKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           NK DL   REV   +   +A++N + F+ETSA T +++ + F + A+++
Sbjct: 124 NKKDLDADREVTFLEASRFAQENELMFLETSALTGEDVEEAFVQCARKI 172

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score =  124 bits (310), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 63/158 (39%), Positives = 89/158 (56%), Gaps = 1/158 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+G+S VGK+  + R+    F P    TVG  F  +T+   D   +K +IWDTAGQE
Sbjct: 24  KLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKR-IKLQIWDTAGQE 82
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY  +   YYRG       YDI + +SF   Q W  +++ +   +  + LVGNK DL ++
Sbjct: 83  RYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDE 142
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA 192
           R VPA+DG   A+  G  F E SAK   N+ Q+FE + 
Sbjct: 143 RVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLV 180

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score =  123 bits (309), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 68/178 (38%), Positives = 96/178 (53%), Gaps = 4/178 (2%)
Query: 15  SGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQT 74
           S G  NL   G+ D      KL+++G+S VGK+  + R+    F P    TVG  F  +T
Sbjct: 8   SSGRENLYFQGNFD---YMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKT 64
Query: 75  IALQDSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK 134
           +   +   VK +IWDTAGQERY  +   YYRG       YDIT+ +SFN  Q W  +++ 
Sbjct: 65  VYRHEKR-VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKT 123
Query: 135 HGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA 192
           +   +  + LVGNK D+ E+R VP + G   AE+ G  F E SAK   ++ Q FE + 
Sbjct: 124 YSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLV 181

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score =  122 bits (305), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 62/168 (36%), Positives = 97/168 (57%), Gaps = 2/168 (1%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+++GDSGVGKS ++LRF    F  +   T+G  F  +T+ + +   VK +IWDTAGQE
Sbjct: 11  KLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEI-NGEKVKLQIWDTAGQE 69
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG       YD+TS +SF   + W+ E+ ++   D+   LVGNK D  E+
Sbjct: 70  RFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQN-CDDVCRILVGNKNDDPER 128
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
           + V  +D  ++A + G+   ETSAK   N+ ++F  I + + R    +
Sbjct: 129 KVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKDN 176

>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 =  121 bits (304), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 59/169 (34%), Positives = 100/169 (59%), Gaps = 1/169 (0%)
Query: 27  SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFE 86
           S+  +   K +++G++G GKSC++ +F+  +F   S  T+G  F S+ I +     VK +
Sbjct: 2   SETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV-GGKYVKLQ 60
Query: 87  IWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVG 146
           IWDTAG ER+ ++   YYRG       YDITS +++N    W+ + +   S +IV+ L G
Sbjct: 61  IWDTAGLERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCG 120
Query: 147 NKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           NK DL   REV   +   +A++N + F+ETSA T +++ + F + A+++
Sbjct: 121 NKKDLDADREVTFLEASRFAQENELMFLETSALTGEDVEEAFVQCARKI 169

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score =  118 bits (296), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 60/158 (37%), Positives = 89/158 (56%), Gaps = 1/158 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G+S VGK+  + R+    F P    TVG  F  +TI   D   +K +IWDTAGQE
Sbjct: 7   KILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKR-IKLQIWDTAGQE 65
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY  +   YYRG       YDIT+ +SFN  Q W  +++ +   +  + LVGNK D+ ++
Sbjct: 66  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDE 125
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA 192
           R V ++ G + A+  G  F E SAK   N+ Q FE + 
Sbjct: 126 RVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLV 163

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score =  118 bits (295), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 61/176 (34%), Positives = 101/176 (57%), Gaps = 6/176 (3%)
Query: 25  GSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVK 84
           GS    + +++++++G  GVGK+ ++ RF    F    K TVG  F  +T+ L+    ++
Sbjct: 18  GSPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELR-GKKIR 76
Query: 85  FEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMAL 144
            +IWDTAGQER+ ++   YYR        YDIT  ++F+    W+K + K+ S D  + L
Sbjct: 77  LQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLL 136
Query: 145 VGNKADLHEKREVPAQDGIEYAEK-NGMFFIETSAKTADNINQLF----EEIAKRL 195
           VGNK D    RE+  Q G ++A++  GM F E SAK   N++++F    ++I K++
Sbjct: 137 VGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKM 192

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score =  115 bits (287), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 62/169 (36%), Positives = 98/169 (57%), Gaps = 7/169 (4%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K + +K+++LGDSGVGK+ ++ ++V  +F    K T+GA FL++ + + D   V  +IWD
Sbjct: 5   KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRL-VTMQIWD 63
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSP----DIVMALV 145
           TAGQER+ +L   +YRG       +D+T+P++F     W  E     SP    +    ++
Sbjct: 64  TAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVL 123
Query: 146 GNKADLHEKREVPAQDGIEYA-EKNGMFFIETSAKTADNINQLFEEIAK 193
           GNK DL E R+V  +    +   KN + + ETSAK A N+ Q F+ IA+
Sbjct: 124 GNKIDL-ENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIAR 171

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score =  114 bits (286), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 62/169 (36%), Positives = 98/169 (57%), Gaps = 7/169 (4%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K + +K+++LGDSGVGK+ ++ ++V  +F    K T+GA FL++ + + D   V  +IWD
Sbjct: 5   KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRL-VTMQIWD 63
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSP----DIVMALV 145
           TAGQER+ +L   +YRG       +D+T+P++F     W  E     SP    +    ++
Sbjct: 64  TAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVL 123
Query: 146 GNKADLHEKREVPAQDGIEYA-EKNGMFFIETSAKTADNINQLFEEIAK 193
           GNK DL E R+V  +    +   KN + + ETSAK A N+ Q F+ IA+
Sbjct: 124 GNKIDL-ENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIAR 171

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score =  113 bits (283), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 61/169 (36%), Positives = 97/169 (57%), Gaps = 7/169 (4%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K + +K+++LGDSGVGK+ ++ ++V  +F    K T+GA FL++ + + D   V  +IWD
Sbjct: 5   KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRL-VTMQIWD 63
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSP----DIVMALV 145
           TAGQER+ +L   +YRG       +D+T+P++F     W  E     SP    +    ++
Sbjct: 64  TAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVL 123
Query: 146 GNKADLHEKREVPAQDGIEYA-EKNGMFFIETSAKTADNINQLFEEIAK 193
           GNK D  E R+V  +    +   KN + + ETSAK A N+ Q F+ IA+
Sbjct: 124 GNKIDF-ENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIAR 171

>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 =  113 bits (283), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 61/158 (38%), Positives = 89/158 (56%), Gaps = 1/158 (0%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G+S VGK+  + R+    F P    TVG  F  +TI   D   +K +IWDTAG E
Sbjct: 10  KILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKR-IKLQIWDTAGLE 68
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY  +   YYRG       YDIT+ +SFN  Q W  +++ +   +  + LVGNK D  ++
Sbjct: 69  RYRTITTAYYRGAXGFILXYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDXEDE 128
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA 192
           R V ++ G + A+  G  F E SAK   N+ Q FE + 
Sbjct: 129 RVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLV 166

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score =  113 bits (282), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 68/187 (36%), Positives = 102/187 (54%), Gaps = 19/187 (10%)
Query: 25  GSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ------ 78
           GS D   L +KL+ LGDSGVGK+  + R+   +F+P    TVG  F  + +         
Sbjct: 18  GSGDYDYL-IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNG 76
Query: 79  ---DSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKH 135
               +  V  ++WDTAGQER+ +L   ++R        +D+TS  SF   + W+ +LQ +
Sbjct: 77  SSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQAN 136
Query: 136 G---SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQ----LF 188
               +PDIV  L+GNKADL ++REV  +   E A+K G+ + ETSA T  N+ +    L 
Sbjct: 137 AYCENPDIV--LIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLL 194
Query: 189 EEIAKRL 195
           + I KR+
Sbjct: 195 DLIMKRM 201

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score =  112 bits (281), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 52/116 (44%), Positives = 74/116 (63%), Gaps = 1/116 (0%)
Query: 36  LVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER 95
           L+L+GDSGVGKSC++LRF    +  +   T+G  F  +TI L D  T+K +IWDTAGQER
Sbjct: 1   LLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQER 59
Query: 96  YAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           +  +   YYRG       YD+T  +SFN  + W++E+ ++ S ++   LVGNK DL
Sbjct: 60  FRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 115

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score =  112 bits (279), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 58/166 (34%), Positives = 95/166 (57%), Gaps = 6/166 (3%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++GDS VGK+C+  RF  G+F   ++ T+G  F  + + + D   +K ++WDTAGQE
Sbjct: 22  KIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDI-DGERIKIQLWDTAGQE 80
Query: 95  RY-AALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLH 152
           R+  ++   YYR        YD+T+  SF+    W++E ++H  + DI   LVGNK DL 
Sbjct: 81  RFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLR 140
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTA---DNINQLFEEIAKRL 195
              +VP     ++A+ + M   ETSAK     D++  +F  +A +L
Sbjct: 141 SAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKL 186

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score =  112 bits (279), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 61/169 (36%), Positives = 97/169 (57%), Gaps = 7/169 (4%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K + +K+++LGDSGVGK+ ++ ++V  +F    K T+GA FL++ + + D   V  +IWD
Sbjct: 5   KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRL-VTMQIWD 63
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSP----DIVMALV 145
           TAG ER+ +L   +YRG       +D+T+P++F     W  E     SP    +    ++
Sbjct: 64  TAGLERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVL 123
Query: 146 GNKADLHEKREVPAQDGIEYA-EKNGMFFIETSAKTADNINQLFEEIAK 193
           GNK DL E R+V  +    +   KN + + ETSAK A N+ Q F+ IA+
Sbjct: 124 GNKIDL-ENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIAR 171

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score =  111 bits (277), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 64/180 (35%), Positives = 98/180 (54%), Gaps = 18/180 (10%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ---------DSTTVK 84
           +KL+ LGDSGVGK+  + R+   +F+P    TVG  F  + +             +  V 
Sbjct: 12  IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVH 71
Query: 85  FEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHG---SPDIV 141
            ++WDTAG ER+ +L   ++R        +D+TS  SF   + W+ +LQ +    +PDIV
Sbjct: 72  LQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV 131
Query: 142 MALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQ----LFEEIAKRLPR 197
             L+GNKADL ++REV  +   E AEK G+ + ETSA T  N+ +    L + I KR+ +
Sbjct: 132 --LIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIMKRMEK 189

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score =  110 bits (276), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 64/180 (35%), Positives = 98/180 (54%), Gaps = 18/180 (10%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ---------DSTTVK 84
           +KL+ LGDSGVGK+  + R+   +F+P    TVG  F  + +             +  V 
Sbjct: 12  IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVH 71
Query: 85  FEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHG---SPDIV 141
            ++WDTAG ER+ +L   ++R        +D+TS  SF   + W+ +LQ +    +PDIV
Sbjct: 72  LQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV 131
Query: 142 MALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQ----LFEEIAKRLPR 197
             L+GNKADL ++REV  +   E AEK G+ + ETSA T  N+ +    L + I KR+ +
Sbjct: 132 --LIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIMKRMEK 189

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score =  110 bits (275), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 65/176 (36%), Positives = 99/176 (56%), Gaps = 11/176 (6%)
Query: 26  SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKF 85
           SS  KN+ +K+++LGDSGVGK+ ++ R+V  ++    K T+GA FL++ + +        
Sbjct: 2   SSRKKNI-LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATM 60
Query: 86  EIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHG---SPDIV- 141
           ++WDTAGQER+ +L   +YRG       YD+T+  SF   + W  E   H    SP+   
Sbjct: 61  QVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFP 120
Query: 142 MALVGNKADLHE-KREVPAQDGIEYAEKNG---MFFIETSAKTADNINQLFEEIAK 193
             ++GNK D  E K+ V  +   E A+  G   +F   TSAK A N++  FEEIA+
Sbjct: 121 FVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFL--TSAKNAINVDTAFEEIAR 174

>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 =  109 bits (273), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 58/172 (33%), Positives = 96/172 (55%), Gaps = 6/172 (3%)
Query: 29  AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIW 88
           A++   K++++GDS VGK+C+  RF  G+F   ++ T+G  F  + + + D   +K ++W
Sbjct: 25  ARSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDI-DGERIKIQLW 83
Query: 89  DTAGQERY-AALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVG 146
           DTAGQER+  ++   YYR        YD T+  SF+    W++E ++H  + DI   LVG
Sbjct: 84  DTAGQERFRKSMVQHYYRNVHAVVFVYDXTNXASFHSLPAWIEECKQHLLANDIPRILVG 143
Query: 147 NKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTA---DNINQLFEEIAKRL 195
           NK DL    +VP     ++A+ +     ETSAK     D++  +F  +A +L
Sbjct: 144 NKCDLRSAIQVPTDLAQKFADTHSXPLFETSAKNPNDNDHVEAIFXTLAHKL 195

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score =  108 bits (271), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 62/185 (33%), Positives = 98/185 (52%), Gaps = 18/185 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTI---------ALQDSTTVK 84
           +K + LGDSGVGK+ ++ ++  G+F+     TVG  F  + +         A+     + 
Sbjct: 12  IKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIH 71
Query: 85  FEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHG---SPDIV 141
            ++WDTAG ER+ +L   ++R        +D+T+  SF   + W+ +LQ H    +PDIV
Sbjct: 72  LQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIV 131
Query: 142 MALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQ----LFEEIAKRLPR 197
             L GNK+DL ++R V  ++  E AEK G+ + ETSA    NI+     L + I KR+ R
Sbjct: 132 --LCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRMER 189
Query: 198 PSPSS 202
               S
Sbjct: 190 SVDKS 194

>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 =  107 bits (268), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 66/180 (36%), Positives = 98/180 (54%), Gaps = 18/180 (10%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ---------DSTTVK 84
           +KL+ LGDSGVGK+  + R+   +F+P    TVG  F  + +             +  V 
Sbjct: 12  IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVH 71
Query: 85  FEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHG---SPDIV 141
            ++WDTAG ER+ +L   ++R        +D+TS  SF   + W  +LQ +    +PDIV
Sbjct: 72  LQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDIV 131
Query: 142 MALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQ----LFEEIAKRLPR 197
             L+GNKADL ++REV  +   E AEK G+ + ETSA T  N+ +    L + I KR  +
Sbjct: 132 --LIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIXKRXEK 189

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score =  107 bits (268), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 66/180 (36%), Positives = 98/180 (54%), Gaps = 18/180 (10%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ---------DSTTVK 84
           +KL+ LGDSGVGK+  + R+   +F+P    TVG  F  + +             +  V 
Sbjct: 12  IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVH 71
Query: 85  FEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHG---SPDIV 141
            ++WDTAG ER+ +L   ++R        +D+TS  SF   + W  +LQ +    +PDIV
Sbjct: 72  LQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDIV 131
Query: 142 MALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQ----LFEEIAKRLPR 197
             L+GNKADL ++REV  +   E AEK G+ + ETSA T  N+ +    L + I KR  +
Sbjct: 132 --LIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIXKRXEK 189

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score =  103 bits (256), Expect = 9e-23,   Method: Compositional matrix adjust.
 Identities = 56/171 (32%), Positives = 89/171 (52%), Gaps = 7/171 (4%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VL GD+ VGKS  ++R  + +F      T+G  F  +T+ +    TV  ++WDTAGQE
Sbjct: 30  KIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTV-LQLWDTAGQE 88
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE- 153
           R+ ++A  Y+R        YD+T   SF   + WV  ++      + + LVGNKAD+ + 
Sbjct: 89  RFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDT 148
Query: 154 -----KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPS 199
                ++ VP   G + A   G  F ETSAK   NI +    +A+ + + +
Sbjct: 149 AATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVKKRT 199

>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 =  102 bits (254), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 60/176 (34%), Positives = 92/176 (52%), Gaps = 7/176 (3%)
Query: 25  GSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVK 84
           G+   K+   K++LLGD GVGKS ++ R+V  +FD     T+G  FL++ + + D   V 
Sbjct: 1   GAMAGKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV-DGHFVT 59
Query: 85  FEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGS----PDI 140
            +IWDTAGQER+ +L   +YRG       + +    SF     W KE   +         
Sbjct: 60  MQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESF 119
Query: 141 VMALVGNKADLHEKREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKRL 195
              ++GNK D+ E R+V  ++   +   NG + + ETSAK A N+   FEE  +R+
Sbjct: 120 PFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 174

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score =  102 bits (253), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 59/174 (33%), Positives = 92/174 (52%), Gaps = 7/174 (4%)
Query: 27  SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFE 86
           S  K+   K++LLGD GVGKS ++ R+V  +FD     T+G  FL++ + + D   V  +
Sbjct: 5   SAGKSSLFKIILLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEV-DGHFVTMQ 63
Query: 87  IWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGS----PDIVM 142
           IWDTAGQER+ +L   +YRG       + +    SF     W KE   +           
Sbjct: 64  IWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPF 123
Query: 143 ALVGNKADLHEKREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKRL 195
            ++GNK D+ E R+V  ++   + + NG + + ETSAK + N+   FEE  +R+
Sbjct: 124 VILGNKTDIKE-RQVSTEEAQAWCKDNGDYPYFETSAKDSTNVAAAFEEAVRRI 176

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score =  101 bits (251), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 58/166 (34%), Positives = 88/166 (53%), Gaps = 7/166 (4%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++LLGD GVGKS ++ R+V  +FD     T+G  FL++ + + D   V  +IWDTAGQE
Sbjct: 9   KVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV-DGHFVTMQIWDTAGQE 67
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGS----PDIVMALVGNKAD 150
           R+ +L   +YRG       + +    SF     W KE   +            ++GNK D
Sbjct: 68  RFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKID 127
Query: 151 LHEKREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKRL 195
           + E R+V  ++   +   NG + + ETSAK A N+   FEE  +R+
Sbjct: 128 ISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 172

>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 =  100 bits (250), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 62/172 (36%), Positives = 92/172 (53%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++ F + QF      TV  ++++      D   V+  +WDTA
Sbjct: 6   IRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTA 63
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 64  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 122
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V  ++G + A + G F ++E SAKT D + ++FE
Sbjct: 123 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 174

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score =  100 bits (250), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 62/172 (36%), Positives = 92/172 (53%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++ F + QF      TV  ++++      D   V+  +WDTA
Sbjct: 4   IRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTA 61
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 62  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 120
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V  ++G + A + G F ++E SAKT D + ++FE
Sbjct: 121 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score =  100 bits (249), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 62/172 (36%), Positives = 92/172 (53%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++ F + QF      TV  ++++      D   V+  +WDTA
Sbjct: 8   IRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTA 65
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 66  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 124
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V  ++G + A + G F ++E SAKT D + ++FE
Sbjct: 125 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 176

>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 =  100 bits (249), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 62/172 (36%), Positives = 92/172 (53%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++ F + QF      TV  ++++      D   V+  +WDTA
Sbjct: 6   IRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTA 63
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 64  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 122
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V  ++G + A + G F ++E SAKT D + ++FE
Sbjct: 123 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 174

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  100 bits (249), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 58/171 (33%), Positives = 93/171 (54%), Gaps = 7/171 (4%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K+L +K++LLGD GVGKS ++ R+V  +FD  +  T+G  FL++ + + D   V  +IWD
Sbjct: 4   KSLLLKVILLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEV-DGRFVTLQIWD 62
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGS----PDIVMALV 145
           TAGQER+ +L   +YRG       + +    SF     W KE   +            ++
Sbjct: 63  TAGQERFKSLRTPFYRGADCCLLTFSVDDRQSFENLGNWQKEFIYYADVKDPEHFPFVVL 122
Query: 146 GNKADLHEKREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKRL 195
           GNK D  E R+V  ++   +  +NG + ++ETSAK   N+   FEE  +++
Sbjct: 123 GNKVD-KEDRQVTTEEAQTWCMENGDYPYLETSAKDDTNVTVAFEEAVRQV 172

>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 =  100 bits (249), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 62/172 (36%), Positives = 92/172 (53%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++ F + QF      TV  ++++      D   V+  +WDTA
Sbjct: 6   IRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTA 63
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 64  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 122
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V  ++G + A + G F ++E SAKT D + ++FE
Sbjct: 123 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 174

>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 =  100 bits (249), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 62/172 (36%), Positives = 92/172 (53%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++ F + QF      TV  ++++      D   V+  +WDTA
Sbjct: 5   IRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTA 62
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 63  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 121
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V  ++G + A + G F ++E SAKT D + ++FE
Sbjct: 122 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 173

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score =  100 bits (249), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 62/172 (36%), Positives = 92/172 (53%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++ F + QF      TV  ++++      D   V+  +WDTA
Sbjct: 7   IRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTA 64
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 65  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 123
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V  ++G + A + G F ++E SAKT D + ++FE
Sbjct: 124 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 175

>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 =  100 bits (249), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 62/172 (36%), Positives = 92/172 (53%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++ F + QF      TV  ++++      D   V+  +WDTA
Sbjct: 5   IRKKLVIVGDVACGKTCLLIVFSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTA 62
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 63  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 121
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V  ++G + A + G F ++E SAKT D + ++FE
Sbjct: 122 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 173

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 97.1 bits (240), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 60/172 (34%), Positives = 92/172 (53%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++ F + QF      TV  ++++      D   V+  +WDTA
Sbjct: 24  IRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIADIEV--DGKQVELALWDTA 81
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 82  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 140
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V +++G + A +   F ++E SAKT + + ++FE
Sbjct: 141 LRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFE 192

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 97.1 bits (240), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 61/172 (35%), Positives = 91/172 (52%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++   + QF      TV  ++++      D   V+  +WDTA
Sbjct: 4   IRKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTA 61
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 62  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 120
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V  ++G + A + G F ++E SAKT D + ++FE
Sbjct: 121 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 97.1 bits (240), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 61/172 (35%), Positives = 91/172 (52%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++   + QF      TV  ++++      D   V+  +WDTA
Sbjct: 4   IRKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTA 61
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 62  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 120
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V  ++G + A + G F ++E SAKT D + ++FE
Sbjct: 121 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>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 = 97.1 bits (240), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 54/169 (31%), Positives = 84/169 (49%)
Query: 25  GSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVK 84
           GS + + L  K+ L+GD GVGK+  + R + G+F+     TVGA     T        +K
Sbjct: 3   GSMERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIK 62
Query: 85  FEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMAL 144
           F +WDTAGQE+ A L  +YY G       +D+TS  +      WVKE Q     +  + +
Sbjct: 63  FNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVV 122
Query: 145 VGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
             NK D+  ++++  +  +E  +     + E SAKTA N    F  +A+
Sbjct: 123 CANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLAR 171

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 96.7 bits (239), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 61/172 (35%), Positives = 91/172 (52%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++   + QF      TV  ++++      D   V+  +WDTA
Sbjct: 2   IRKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTA 59
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 60  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 118
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V  ++G + A + G F ++E SAKT D + ++FE
Sbjct: 119 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 170

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 96.7 bits (239), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 61/172 (35%), Positives = 91/172 (52%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++   + QF      TV  ++++      D   V+  +WDTA
Sbjct: 4   IRKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTA 61
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 62  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 120
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V  ++G + A + G F ++E SAKT D + ++FE
Sbjct: 121 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 96.7 bits (239), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 61/172 (35%), Positives = 91/172 (52%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++   + QF      TV  ++++      D   V+  +WDTA
Sbjct: 2   IRKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTA 59
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 60  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 118
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V  ++G + A + G F ++E SAKT D + ++FE
Sbjct: 119 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 170

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 96.7 bits (239), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 60/172 (34%), Positives = 92/172 (53%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++ F + QF      TV  ++++      D   V+  +WDTA
Sbjct: 24  IRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIADIEV--DGKQVELALWDTA 81
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 82  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFXPNVPIILVGNKKD 140
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V +++G + A +   F ++E SAKT + + ++FE
Sbjct: 141 LRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFE 192

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 96.7 bits (239), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 58/165 (35%), Positives = 92/165 (55%), Gaps = 4/165 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV+LG  GVGKS + ++FV+G F      T+  S+  Q     D+     EI DTAG E
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEV--DAQQCMLEILDTAGTE 62
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHE 153
           ++ A+  LY +        Y IT+  +FN  Q   ++ L+   + D+ M LVGNK DL +
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLED 122
Query: 154 KREVPAQDGIEYAEK-NGMFFIETSAKTADNINQLFEEIAKRLPR 197
           +R V  + G   A + N   F+E+SAK+  N+N++F ++ +++ R
Sbjct: 123 ERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQINR 167

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 96.3 bits (238), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 58/165 (35%), Positives = 92/165 (55%), Gaps = 4/165 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV+LG  GVGKS + ++FV+G F      T+  S+  Q     D+     EI DTAG E
Sbjct: 7   KLVVLGSVGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEV--DAQQCMLEILDTAGTE 64
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHE 153
           ++ A+  LY +        Y IT+  +FN  Q   ++ L+   + D+ M LVGNK DL +
Sbjct: 65  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLED 124
Query: 154 KREVPAQDGIEYAEK-NGMFFIETSAKTADNINQLFEEIAKRLPR 197
           +R V  + G   A + N   F+E+SAK+  N+N++F ++ +++ R
Sbjct: 125 ERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQINR 169

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 95.5 bits (236), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 61/172 (35%), Positives = 89/172 (51%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++ F + QF      TV  ++++      D   V+  +WDTA
Sbjct: 4   IRKKLVIVGDVACGKTCLLIVFSKDQFPAVYVPTVFENYVADIEV--DGKQVELALWDTA 61
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y    PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 62  GQEDYDRARPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 120
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H  RE        V   +G + A + G F ++E SAKT D + ++FE
Sbjct: 121 LRNDEHTARELAKMKQEPVKPAEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 94.0 bits (232), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 60/172 (34%), Positives = 90/172 (52%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++   + QF      TV  ++++      D   V+  +WDTA
Sbjct: 7   IRKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIEV--DGKQVELALWDTA 64
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           G E Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 65  GLEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 123
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V  ++G + A + G F ++E SAKT D + ++FE
Sbjct: 124 LRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 175

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 93.6 bits (231), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 59/172 (34%), Positives = 91/172 (52%), Gaps = 17/172 (9%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++   + QF      TV  ++++      D   V+  +WDTA
Sbjct: 4   IRKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYIADIEV--DGKQVELALWDTA 61
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y         + I SPDS  N  + W  E+ KH  P++ + LVGNK D
Sbjct: 62  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKD 120
Query: 151 L----HEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           L    H +RE        V +++G + A +   F ++E SAKT + + ++FE
Sbjct: 121 LRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFE 172

>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 = 93.6 bits (231), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 57/165 (34%), Positives = 90/165 (54%), Gaps = 4/165 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV+LG  GVGKS + ++FV+G F      T+  S+  Q     D      EI DTAG E
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEV--DCQQCMLEILDTAGTE 62
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHE 153
           ++ A+  LY +        Y IT+  +FN  Q   ++ L+   + D+ M LVGNK DL +
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122
Query: 154 KREVPAQDGIEYAEK-NGMFFIETSAKTADNINQLFEEIAKRLPR 197
           +R V  + G   A +     F+E+SAK+  N+N++F ++ +++ R
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQINR 167

>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 = 93.2 bits (230), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 57/165 (34%), Positives = 90/165 (54%), Gaps = 4/165 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV+LG  GVGKS + ++FV+G F      T+  S+  Q     D      EI DTAG E
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVDEYDPTIEDSYRKQVEV--DCQQCMLEILDTAGTE 62
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHE 153
           ++ A+  LY +        Y IT+  +FN  Q   ++ L+   + D+ M LVGNK DL +
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122
Query: 154 KREVPAQDGIEYAEK-NGMFFIETSAKTADNINQLFEEIAKRLPR 197
           +R V  + G   A +     F+E+SAK+  N+N++F ++ +++ R
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQINR 167

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 92.0 bits (227), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 54/163 (33%), Positives = 95/163 (58%), Gaps = 4/163 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G  GVGKS + L+F+  +F    + T   S+  + +   D   V+ +I DTAG E
Sbjct: 9   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL--DGEEVQIDILDTAGLE 66
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFN-KAQYWVKELQKHGSPD-IVMALVGNKADLH 152
            YAA+   Y+R        + IT  +SF   A++  + L+     D I + +VGNK+DL 
Sbjct: 67  DYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLE 126
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           E+R+VP ++    AE+ G+ ++ETSAKT  N++++F ++ + +
Sbjct: 127 ERRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREI 169

>pdb|2KE5|A Chain A, Solution Structure And Dynamics Of The Small Gtpase Ralb In Its Active Conformation: Significance For Effector Protein Binding Length = 174

Iteration: 1
 Score = 92.0 bits (227), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 54/163 (33%), Positives = 95/163 (58%), Gaps = 4/163 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G  GVGKS + L+F+  +F    + T   S+  + +   D   V+ +I DTAG E
Sbjct: 5   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL--DGEEVQIDILDTAGLE 62
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFN-KAQYWVKELQKHGSPD-IVMALVGNKADLH 152
            YAA+   Y+R        + IT  +SF   A++  + L+     D I + +VGNK+DL 
Sbjct: 63  DYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLE 122
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           E+R+VP ++    AE+ G+ ++ETSAKT  N++++F ++ + +
Sbjct: 123 ERRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREI 165

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 91.3 bits (225), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 52/161 (32%), Positives = 86/161 (53%), Gaps = 2/161 (1%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K+V++G+  VGKS ++ R+ +G F    K T+G  FL + I + D   V+  +WDTAGQ
Sbjct: 6   IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDED-VRLMLWDTAGQ 64
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           E + A+   YYRG       +  T  +SF     W +E       DI  ALV NK DL +
Sbjct: 65  EEFDAITKAYYRGAQACVLVFSTTDRESFEAISSW-REKVVAEVGDIPTALVQNKIDLLD 123
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKR 194
              +  ++    A++  + F  TS K   N++++F+ +A++
Sbjct: 124 DSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEK 164

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score = 89.4 bits (220), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 52/162 (32%), Positives = 92/162 (56%), Gaps = 3/162 (1%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G  GVGKS + L+F+  +F    + T   S+  + +   D   V+ +I DTAGQE
Sbjct: 16  KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL--DGEEVQIDILDTAGQE 73
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFN-KAQYWVKELQKHGSPDIVMALVGNKADLHE 153
            YAA+   Y+R        + IT  +SF   A +  + L+     ++   LVGNK+DL +
Sbjct: 74  DYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED 133
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           KR+V  ++    AE+  + ++ETSAKT  N++++F ++ + +
Sbjct: 134 KRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 175

>pdb|2A78|A Chain A, Crystal Structure Of The C3bot-Rala Complex Reveals A Novel Type Of Action Of A Bacterial Exoenzyme Length = 187

Iteration: 1
 Score = 89.0 bits (219), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 52/162 (32%), Positives = 92/162 (56%), Gaps = 3/162 (1%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G  GVGKS + L+F+  +F    + T   S+  + +   D   V+ +I DTAGQE
Sbjct: 20  KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL--DGEEVQIDILDTAGQE 77
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFN-KAQYWVKELQKHGSPDIVMALVGNKADLHE 153
            YAA+   Y+R        + IT  +SF   A +  + L+     ++   LVGNK+DL +
Sbjct: 78  DYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED 137
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           KR+V  ++    AE+  + ++ETSAKT  N++++F ++ + +
Sbjct: 138 KRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 179

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score = 89.0 bits (219), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 52/162 (32%), Positives = 92/162 (56%), Gaps = 3/162 (1%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G  GVGKS + L+F+  +F    + T   S+  + +   D   V+ +I DTAGQE
Sbjct: 8   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL--DGEEVQIDILDTAGQE 65
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFN-KAQYWVKELQKHGSPDIVMALVGNKADLHE 153
            YAA+   Y+R        + IT  +SF   A +  + L+     ++   LVGNK+DL +
Sbjct: 66  DYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED 125
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           KR+V  ++    AE+  + ++ETSAKT  N++++F ++ + +
Sbjct: 126 KRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 167

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 89.0 bits (219), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 59/178 (33%), Positives = 91/178 (51%), Gaps = 17/178 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGASFLSQTIALQDSTTVKFEIWDTAG 92
           +K V +GD  VGK+C+++ +    F PT  V TV  +F +  +   D  TV   +WDTAG
Sbjct: 7   IKCVTVGDGAVGKTCMLISYTSNTF-PTDYVPTVFDNFSANVVV--DGNTVNLGLWDTAG 63
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADL 151
           QE Y  L PL YRG       + + S  S+ N A+ W+ EL +H +P + + LVG K DL
Sbjct: 64  QEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPEL-RHYAPGVPIILVGTKLDL 122
Query: 152 HEKRE----------VPAQDGIEYAEKNGM-FFIETSAKTADNINQLFEEIAKRLPRP 198
            + ++          +    G E  +  G   +IE S+KT  N+  +F+   K + +P
Sbjct: 123 RDDKQFFIDHPGAVPITTNQGEELKKLIGSPIYIECSSKTQQNVKAVFDAAIKVVLQP 180

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 87.4 bits (215), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 63/193 (32%), Positives = 94/193 (48%), Gaps = 22/193 (11%)
Query: 11  SSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASF 70
           SSG   G  NL          +R KLV++GD   GK+C+++ F + +F      TV  ++
Sbjct: 8   SSGVDLGTENLYFQSM-----IRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENY 62
Query: 71  LSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWV 129
           ++      D   V+  +WDTAGQE Y  L PL Y         + + SPDS  N  + WV
Sbjct: 63  VADIEV--DGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWV 120
Query: 130 KELQKHGSPDIVMALVGNKADL----HEKRE--------VPAQDGIEYAEKNGMF-FIET 176
            E+ KH  P++ + LV NK DL    H + E        V   DG   A +   + ++E 
Sbjct: 121 PEV-KHFCPNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLEC 179
Query: 177 SAKTADNINQLFE 189
           SAKT + + ++FE
Sbjct: 180 SAKTKEGVREVFE 192

>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 = 87.4 bits (215), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 51/162 (31%), Positives = 92/162 (56%), Gaps = 3/162 (1%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G  GVGKS + L+F+  +F    + T   S+  + +   D   V+ +I DTAGQE
Sbjct: 6   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL--DGEEVQIDILDTAGQE 63
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFN-KAQYWVKELQKHGSPDIVMALVGNKADLHE 153
            YAA+   Y+R        + IT  +SF   A +  + L+     ++   LVGNK+DL +
Sbjct: 64  DYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED 123
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           KR+V  ++    A++  + ++ETSAKT  N++++F ++ + +
Sbjct: 124 KRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREI 165

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 87.0 bits (214), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 59/178 (33%), Positives = 90/178 (50%), Gaps = 17/178 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGASFLSQTIALQDSTTVKFEIWDTAG 92
           +K V +GD  VGK+C+++ +    F PT  V TV  +F +  +   D +TV   +WDTAG
Sbjct: 7   IKCVTVGDGAVGKTCMLISYTGNTF-PTDYVPTVFDNFSANVVV--DGSTVNLGLWDTAG 63
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADL 151
           QE Y  L PL YRG       + + S  S+ N  + W+ EL KH +P I + LVG K DL
Sbjct: 64  QEDYNRLRPLSYRGADVFLLAFSLISKASYENIHKKWLPEL-KHYAPGIPIVLVGTKLDL 122
Query: 152 HEKREV----PAQDGIEYAEKN-------GMFFIETSAKTADNINQLFEEIAKRLPRP 198
            + ++     P    I  A+          + ++E S+KT  N+  +F+   +   RP
Sbjct: 123 RDDKQFLKDHPGAASITTAQGEELRKMIGAVRYLECSSKTQQNVKAVFDTAIRVALRP 180

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 86.7 bits (213), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 50/166 (30%), Positives = 81/166 (48%), Gaps = 3/166 (1%)
Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           ++K+V+LGD   GK+ +   F +  F    K T+G  F  + I L  +  V  +IWD  G
Sbjct: 6   QLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGG 65
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYW---VKELQKHGSPDIVMALVGNKA 149
           Q     +   Y  G       YDIT+  SF   + W   VK++ +      ++ALVGNK 
Sbjct: 66  QTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKI 125
Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           DL   R +  +  + + ++NG      SAKT D++   F+++A  +
Sbjct: 126 DLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEI 171

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 67/202 (33%), Positives = 96/202 (47%), Gaps = 23/202 (11%)
Query: 11  SSGQSGGLNNL---ENAGSSDAKNLR-VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTV 66
           SSG   G  NL     AG      +R VK+VL+GD G GK+ +++ F  G F  +   TV
Sbjct: 8   SSGVDLGTENLYFQSMAGEEAPPGVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTV 67
Query: 67  GASFLSQTIALQ-DSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSF-NK 124
              F    + LQ     V   IWDTAGQ+ Y  L PL+Y         +D+TSP+SF N 
Sbjct: 68  ---FERYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNI 124
Query: 125 AQYWVKELQKHGSPDIVMALVGNKADLHEKRE------------VPAQDGIEYAEKNG-M 171
              W  E+  H    + + +VG K DL + +             V    G E A   G +
Sbjct: 125 FNRWYPEVN-HFCKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAV 183
Query: 172 FFIETSAKTADNINQLFEEIAK 193
            ++E SA+  DN++ +F+E A+
Sbjct: 184 AYLECSARLHDNVHAVFQEAAE 205

>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 = 85.9 bits (211), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 51/162 (31%), Positives = 91/162 (56%), Gaps = 3/162 (1%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G  GVGKS + L+F+  +F    + T   S+  + +   D   V+ +I DTAG E
Sbjct: 8   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL--DGEEVQIDILDTAGLE 65
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFN-KAQYWVKELQKHGSPDIVMALVGNKADLHE 153
            YAA+   Y+R        + IT  +SF   A +  + L+     ++   LVGNK+DL +
Sbjct: 66  DYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED 125
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           KR+V  ++    AE+  + ++ETSAKT  N++++F ++ + +
Sbjct: 126 KRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 167

>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 = 85.1 bits (209), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 54/175 (30%), Positives = 91/175 (52%), Gaps = 13/175 (7%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V +GD  VGK+C+++ +   +F PT  +       S  +A+ D   V   +WDTAGQ
Sbjct: 10  IKCVTVGDGAVGKTCMLICYTSNKF-PTDYIPTVFDNFSANVAV-DGQIVNLGLWDTAGQ 67
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y+ L PL YRG       + + S  S+ N  + W+ EL++  +P++ + LVG K DL 
Sbjct: 68  EDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRF-APNVPIVLVGTKLDLR 126
Query: 153 EKR--------EVPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEEIAKRLPRP 198
           + +         + +  G E  ++ G   +IE S+KT  N+  +F+   K + +P
Sbjct: 127 DDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQP 181

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 84.7 bits (208), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 52/164 (31%), Positives = 85/164 (51%), Gaps = 4/164 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV++G  GVGKS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE
Sbjct: 6   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQE 63
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHE 153
            Y+A+   Y R        + I +  SF    ++ +++++   S D+ M LVGNK+DL  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDL-P 122
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
            R V  +   + A   G+ FIETSAKT   ++  F  + + + +
Sbjct: 123 SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRK 166

>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 = 84.3 bits (207), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 52/164 (31%), Positives = 84/164 (51%), Gaps = 4/164 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV++G  GVGKS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE
Sbjct: 6   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQE 63
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHE 153
            Y+A+   Y R        + I +  SF    ++ +++++   S D+ M LVGNK DL  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDL-P 122
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
            R V  +   + A   G+ FIETSAKT   ++  F  + + + +
Sbjct: 123 SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRK 166

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 83.6 bits (205), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 56/178 (31%), Positives = 92/178 (51%), Gaps = 17/178 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGASFLSQTIALQDSTTVKFEIWDTAG 92
           +K V +GD  VGK+C+++ +    F PT  V TV  +F +  +   +  TV   +WDTAG
Sbjct: 9   IKCVTVGDGAVGKTCLLISYTSNTF-PTDYVPTVFDNFSANVVV--NGATVNLGLWDTAG 65
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADL 151
           QE Y  L PL YRG       + + S  S+ N ++ W+ EL KH +P + + LVG K DL
Sbjct: 66  QEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPEL-KHYAPGVPIVLVGTKLDL 124
Query: 152 HEKRE----------VPAQDGIEYAEKNGM-FFIETSAKTADNINQLFEEIAKRLPRP 198
            + ++          +    G E  +  G   +IE S+K+ +N+  +F+   + + +P
Sbjct: 125 RDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIRVVLQP 182

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 83.6 bits (205), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 51/164 (31%), Positives = 89/164 (54%), Gaps = 4/164 (2%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           ++ KLVL+GD G GK+  V R + G+F+     T+G   +   +   +   +KF +WDTA
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLVFHTNRGPIKFNVWDTA 67
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           GQE+Y  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+
Sbjct: 68  GQEKYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDI 126
Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            + R+V A+  + + +KN  ++ + SAK+  N  + F  +A++L
Sbjct: 127 KD-RKVKAKSIVFHRKKNLQYY-DISAKSNYNFEKPFLWLARKL 168

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 82.8 bits (203), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 50/164 (30%), Positives = 89/164 (54%), Gaps = 4/164 (2%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           ++ KLVL+GD G GK+  V R + G+F+     T+G   +   +   +   +KF +WDTA
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLVFHTNRGPIKFNVWDTA 67
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           GQE++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+
Sbjct: 68  GQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDI 126
Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            + R+V A+  + + +KN  ++ + SAK+  N  + F  +A++L
Sbjct: 127 KD-RKVKAKSIVFHRKKNLQYY-DISAKSNYNFEKPFLWLARKL 168

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 50/164 (30%), Positives = 89/164 (54%), Gaps = 4/164 (2%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           ++ KLVL+GD G GK+  V R + G+F+     T+G   +   +   +   +KF +WDTA
Sbjct: 14  VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLVFHTNRGPIKFNVWDTA 72
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           GQE++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+
Sbjct: 73  GQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDI 131
Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            + R+V A+  + + +KN  ++ + SAK+  N  + F  +A++L
Sbjct: 132 KD-RKVKAKSIVFHRKKNLQYY-DISAKSNYNFEKPFLWLARKL 173

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 50/164 (30%), Positives = 89/164 (54%), Gaps = 4/164 (2%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           ++ KLVL+GD G GK+  V R + G+F+     T+G   +   +   +   +KF +WDTA
Sbjct: 2   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLVFHTNRGPIKFNVWDTA 60
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           GQE++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+
Sbjct: 61  GQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDI 119
Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            + R+V A+  + + +KN  ++ + SAK+  N  + F  +A++L
Sbjct: 120 KD-RKVKAKSIVFHRKKNLQYY-DISAKSNYNFEKPFLWLARKL 161

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 66/189 (34%), Positives = 94/189 (49%), Gaps = 7/189 (3%)
Query: 11  SSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASF 70
           SSG   G  NL     S AK+  VKL + G +GVGKS +V+RF+  +F      T+ +++
Sbjct: 8   SSGVDLGTENL--YFQSMAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY 65
Query: 71  LSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVK 130
             Q  A  D   V  EI DTAGQE        + R        YDIT   SF +      
Sbjct: 66  RHQ--ATIDDEVVSMEILDTAGQEDTIQREG-HMRWGEGFVLVYDITDRGSFEEVLPLKN 122
Query: 131 ELQKHGSP-DIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD-NINQLF 188
            L +   P ++ + LVGNKADL   R+V  ++G + A +    F E SA T + NI ++F
Sbjct: 123 ILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIF 182
Query: 189 EEIAKRLPR 197
            E+ + + R
Sbjct: 183 YELCREVRR 191

>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 = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 50/164 (30%), Positives = 89/164 (54%), Gaps = 4/164 (2%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           ++ KLVL+GD G GK+  V R + G+F+     T+G   +   +   +   +KF +WDTA
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLVFHTNRGPIKFNVWDTA 67
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           GQE++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+
Sbjct: 68  GQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDI 126
Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            + R+V A+  + + +KN  ++ + SAK+  N  + F  +A++L
Sbjct: 127 KD-RKVKAKSIVFHRKKNLQYY-DISAKSNYNFEKPFLWLARKL 168

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 50/164 (30%), Positives = 89/164 (54%), Gaps = 4/164 (2%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           ++ KLVL+GD G GK+  V R + G+F+     T+G   +   +   +   +KF +WDTA
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLVFHTNRGPIKFNVWDTA 67
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           GQE++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+
Sbjct: 68  GQEKFGGLEDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDI 126
Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            + R+V A+  + + +KN  ++ + SAK+  N  + F  +A++L
Sbjct: 127 KD-RKVKAKSIVFHRKKNLQYY-DISAKSNYNFEKPFLWLARKL 168

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 50/164 (30%), Positives = 89/164 (54%), Gaps = 4/164 (2%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           ++ KLVL+GD G GK+  V R + G+F+     T+G   +   +   +   +KF +WDTA
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLVFHTNRGPIKFNVWDTA 67
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           GQE++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+
Sbjct: 68  GQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDI 126
Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            + R+V A+  + + +KN  ++ + SAK+  N  + F  +A++L
Sbjct: 127 KD-RKVKAKSIVFHRKKNLQYY-DISAKSNYNFEKPFLWLARKL 168

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 50/164 (30%), Positives = 89/164 (54%), Gaps = 4/164 (2%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           ++ KLVL+GD G GK+  V R + G+F+     T+G   +   +   +   +KF +WDTA
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVE-VHPLVFHTNRGPIKFNVWDTA 67
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           GQE++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+
Sbjct: 68  GQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDI 126
Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            + R+V A+  + + +KN  ++ + SAK+  N  + F  +A++L
Sbjct: 127 KD-RKVKAKSIVFHRKKNLQYY-DISAKSNYNFEKPFLWLARKL 168

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 81.6 bits (200), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 51/164 (31%), Positives = 90/164 (54%), Gaps = 4/164 (2%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           ++ KLVL+GD G GK+  V R + G+F+     T+G   +   +   +   +KF +WDTA
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLVFHTNRGPIKFNVWDTA 67
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           GQE++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+
Sbjct: 68  GQEKFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDI 126
Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            + R+V A+  + + +KN  ++ + SAK+  N  + F  +A++L
Sbjct: 127 KD-RKVKAKSIVFHRKKNLQYY-DISAKSNYNFEKPFLWLARKL 168

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 81.3 bits (199), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 50/164 (30%), Positives = 89/164 (54%), Gaps = 4/164 (2%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           ++ KLVL+GD G GK+  V R + G+F+     T+G   +   +   +   +KF +WDTA
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVE-VHPLVFHTNRGPIKFNVWDTA 67
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           GQE++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+
Sbjct: 68  GQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDI 126
Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            + R+V A+  + + +KN  ++ + SAK+  N  + F  +A++L
Sbjct: 127 KD-RKVKAKSIVFHRKKNLQYY-DISAKSNYNFEKPFLWLARKL 168

>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 = 80.9 bits (198), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 51/162 (31%), Positives = 82/162 (50%), Gaps = 4/162 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV++G  GVGKS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE
Sbjct: 5   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQE 62
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHE 153
            Y+A+   Y R        + I +  SF     + +++++   S D+ M LVGNK DL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-A 121
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            R V ++   + A   G+ +IETSAKT   +   F  + + +
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|421P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 80.9 bits (198), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 51/162 (31%), Positives = 82/162 (50%), Gaps = 4/162 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV++G  GVGKS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE
Sbjct: 5   KLVVVGARGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQE 62
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHE 153
            Y+A+   Y R        + I +  SF     + +++++   S D+ M LVGNK DL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-A 121
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            R V ++   + A   G+ +IETSAKT   +   F  + + +
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 80.5 bits (197), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 51/162 (31%), Positives = 82/162 (50%), Gaps = 4/162 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV++G  GVGKS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE
Sbjct: 5   KLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQE 62
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHE 153
            Y+A+   Y R        + I +  SF     + +++++   S D+ M LVGNK DL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-A 121
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            R V ++   + A   G+ +IETSAKT   +   F  + + +
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1JAH|A Chain A, H-Ras P21 Protein Mutant G12p, Complexed With Guanosine-5'- [beta,Gamma-Methylene] Triphosphate And Magnesium Length = 166

Iteration: 1
 Score = 80.1 bits (196), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 51/162 (31%), Positives = 82/162 (50%), Gaps = 4/162 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV++G  GVGKS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE
Sbjct: 5   KLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQE 62
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHE 153
            Y+A+   Y R        + I +  SF     + +++++   S D+ M LVGNK DL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-A 121
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            R V ++   + A   G+ +IETSAKT   +   F  + + +
Sbjct: 122 GRTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 80.1 bits (196), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 49/164 (29%), Positives = 88/164 (53%), Gaps = 4/164 (2%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           ++ KLVL+GD G GK+  V R + G+F+     T+G   +   +   +   +KF +WDTA
Sbjct: 11  VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLVFHTNRGPIKFNVWDTA 69
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           G E++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+
Sbjct: 70  GLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDI 128
Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            + R+V A+  + + +KN  ++ + SAK+  N  + F  +A++L
Sbjct: 129 KD-RKVKAKSIVFHRKKNLQYY-DISAKSNYNFEKPFLWLARKL 170

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 80.1 bits (196), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 50/161 (31%), Positives = 84/161 (52%), Gaps = 4/161 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLVL+GD G GK+  V R + G+F+     T+G      +    +   +KF++WDTAG E
Sbjct: 7   KLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSF-YTNFGEIKFDVWDTAGLE 65
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           ++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+ E 
Sbjct: 66  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVR-VCENIPIVLCGNKVDVKE- 123
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R+V A+  I +  K  + + + SAK+  N  + F  +A++L
Sbjct: 124 RKVKAKT-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 163

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 80.1 bits (196), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 49/164 (29%), Positives = 88/164 (53%), Gaps = 4/164 (2%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           ++ KLVL+GD G GK+  V R + G+F+     T+G   +   +   +   +KF +WDTA
Sbjct: 5   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLVFHTNRGPIKFNVWDTA 63
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           G E++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+
Sbjct: 64  GLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDI 122
Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            + R+V A+  + + +KN  ++ + SAK+  N  + F  +A++L
Sbjct: 123 KD-RKVKAKSIVFHRKKNLQYY-DISAKSNYNFEKPFLWLARKL 164

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 79.7 bits (195), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 50/161 (31%), Positives = 84/161 (52%), Gaps = 4/161 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLVL+GD G GK+  V R + G+F+     T+G      +    +   +KF++WDTAG E
Sbjct: 6   KLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSF-YTNFGEIKFDVWDTAGLE 64
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           ++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+ E 
Sbjct: 65  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVR-VCENIPIVLCGNKVDVKE- 122
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R+V A+  I +  K  + + + SAK+  N  + F  +A++L
Sbjct: 123 RKVKAKT-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 162

>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 = 79.7 bits (195), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 50/161 (31%), Positives = 84/161 (52%), Gaps = 4/161 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLVL+GD G GK+  V R + G+F+     T+G      +    +   +KF++WDTAG E
Sbjct: 14  KLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSF-YTNFGEIKFDVWDTAGLE 72
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           ++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+ E 
Sbjct: 73  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVR-VCENIPIVLCGNKVDVKE- 130
Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R+V A+  I +  K  + + + SAK+  N  + F  +A++L
Sbjct: 131 RKVKAKT-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 170

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 54/168 (32%), Positives = 86/168 (51%), Gaps = 3/168 (1%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+V+LG   VGK+ +  +FV G+F      TV  ++ S+ + L         + DTAGQ+
Sbjct: 26  KVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTL-GKDEFHLHLVDTAGQD 83
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHE 153
            Y+ L   +  G       Y +TS  SF   +   ++L + HG   + + LVGNKADL  
Sbjct: 84  EYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSP 143
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPS 201
           +REV A +G + AE  G  F+E+SA+       +F ++ + + R   S
Sbjct: 144 EREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIARVENS 191

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 49/164 (29%), Positives = 88/164 (53%), Gaps = 4/164 (2%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           ++ KLVL+GD G GK+  V R + G+F+     T+G   +   +   +   +KF +WDTA
Sbjct: 9   VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE-VHPLVFHTNRGPIKFNVWDTA 67
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           G E++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+
Sbjct: 68  GLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDI 126
Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            + R+V A+  + + +KN  ++ + SAK+  N  + F  +A++L
Sbjct: 127 KD-RKVKAKSIVFHRKKNLQYY-DISAKSNYNFEKPFLWLARKL 168

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 54/173 (31%), Positives = 84/173 (48%), Gaps = 17/173 (9%)
Query: 31  NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           ++R KLV++GD   GK+C+++   +GQF      TV  ++++      D   V+  +WDT
Sbjct: 8   SIRRKLVIVGDGACGKTCLLIVNSKGQFPEVYVPTVFENYVADVEV--DGRRVELALWDT 65
Query: 91  AGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKA 149
           AGQE Y  L PL Y         + I  PDS    Q  W+ E+  H    + + LVG K 
Sbjct: 66  AGQEDYDRLRPLSYPDSNVVLICFSIDLPDSLENVQEKWIAEV-LHFCQGVPIILVGCKV 124
Query: 150 DLHE------------KREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFE 189
           DL              ++ V +Q+G   A++ G   + E SAKT   + ++FE
Sbjct: 125 DLRNDPQTIEQLRQEGQQPVTSQEGQSVADQIGATGYYECSAKTGYGVREVFE 177

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 49/164 (29%), Positives = 88/164 (53%), Gaps = 4/164 (2%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           ++ KLVL+GD G GK+  V R + G+ +     T+G   +   +   +   +KF +WDTA
Sbjct: 14  VQFKLVLVGDGGTGKTTFVKRHLTGESEKKYVATLGVE-VHPLVFHTNRGPIKFNVWDTA 72
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           GQE++  L   YY         +D+TS  ++     W ++L +    +I + L GNK D+
Sbjct: 73  GQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR-VCENIPIVLCGNKVDI 131
Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            + R+V A+  + + +KN  ++ + SAK+  N  + F  +A++L
Sbjct: 132 KD-RKVKAKSIVFHRKKNLQYY-DISAKSNYNFEKPFLWLARKL 173

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/181 (29%), Positives = 84/181 (46%), Gaps = 17/181 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 63
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E+ +H  P+  + LVG K DL 
Sbjct: 64  EDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLR 122
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKRLPRPS 199
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E  + +  P 
Sbjct: 123 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP 182
Query: 200 P 200
           P
Sbjct: 183 P 183

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/181 (29%), Positives = 84/181 (46%), Gaps = 17/181 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 65
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E+ +H  P+  + LVG K DL 
Sbjct: 66  EDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLR 124
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKRLPRPS 199
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E  + +  P 
Sbjct: 125 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP 184
Query: 200 P 200
           P
Sbjct: 185 P 185

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 51/170 (30%), Positives = 84/170 (49%), Gaps = 17/170 (10%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           VK VL+GD  VGK+ +V+ +    + PT  +       S  +++ D   V+ ++ DTAGQ
Sbjct: 21  VKCVLVGDGAVGKTSLVVSYTTNGY-PTEYIPTAFDNFSAVVSV-DGRPVRLQLCDTAGQ 78
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           + +  L PL Y         + + SP SF N ++ WV E++ H  P   + LVG ++DL 
Sbjct: 79  DEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCH-CPKAPIILVGTQSDLR 137
Query: 153 E------------KREVPAQDGIEYAEK-NGMFFIETSAKTADNINQLFE 189
           E            ++ VP +     AE+     +IE SA T  N+ ++F+
Sbjct: 138 EDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFD 187

>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 = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/181 (29%), Positives = 84/181 (46%), Gaps = 17/181 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E+ +H  P+  + LVG K DL 
Sbjct: 62  EDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLR 120
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKRLPRPS 199
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E  + +  P 
Sbjct: 121 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP 180
Query: 200 P 200
           P
Sbjct: 181 P 181

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/181 (29%), Positives = 84/181 (46%), Gaps = 17/181 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E+ +H  P+  + LVG K DL 
Sbjct: 62  EDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLR 120
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKRLPRPS 199
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E  + +  P 
Sbjct: 121 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP 180
Query: 200 P 200
           P
Sbjct: 181 P 181

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/182 (29%), Positives = 85/182 (46%), Gaps = 17/182 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   DS  V   +WDTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DSKPVNLGLWDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP S+ N    W  E+ +H  P   + LVG K DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEV-RHHCPSTPIILVGTKLDLR 120
Query: 153 ----------EKREVPAQ--DGIEYA-EKNGMFFIETSAKTADNINQLFEEIAKRLPRPS 199
                     EK+  P     G+  A E + + ++E SA T   +  +F+E  + +  P 
Sbjct: 121 DDKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDEAIRAVLCPQ 180
Query: 200 PS 201
           P+
Sbjct: 181 PT 182

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/181 (29%), Positives = 84/181 (46%), Gaps = 17/181 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E+ +H  P+  + LVG K DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLR 120
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKRLPRPS 199
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E  + +  P 
Sbjct: 121 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP 180
Query: 200 P 200
           P
Sbjct: 181 P 181

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 54/181 (29%), Positives = 84/181 (46%), Gaps = 17/181 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E+ +H  P+  + LVG K DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLR 120
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKRLPRPS 199
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E  + +  P 
Sbjct: 121 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP 180
Query: 200 P 200
           P
Sbjct: 181 P 181

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 54/174 (31%), Positives = 88/174 (50%), Gaps = 9/174 (5%)
Query: 23  NAGSSDAKNLR--VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDS 80
           N G+   +N +  +K+V++GD  VGK+C++L F +G+  PT+ V       S  +  ++ 
Sbjct: 11  NTGAGKIENGKKALKIVVVGDGAVGKTCLLLAFSKGEI-PTAYVPTVFENFSHVMKYKNE 69
Query: 81  TTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPD 139
             +   +WDTAGQE Y  L PL Y         + + +  SF N +  W  E+ KH    
Sbjct: 70  EFI-LHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEI-KHYIDT 127
Query: 140 IVMALVGNKADLHE--KREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFEE 190
               LVG K DL +    +V  Q+G +  +K G   +IE S+     +N++FE+
Sbjct: 128 AKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEK 181

>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 = 73.6 bits (179), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 55/181 (30%), Positives = 86/181 (47%), Gaps = 18/181 (9%)
Query: 25  GSSDAKNLR-VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTV 83
           GSS +  ++ +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V
Sbjct: 1   GSSGSSGMQAIKCVVVGDGAVGKNCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPV 58
Query: 84  KFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVM 142
              +WDTAGQE Y  L PL Y         + + SP SF N    W  E++ H  P+  +
Sbjct: 59  NLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-CPNTPI 117
Query: 143 ALVGNKADLH----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFE 189
            LVG K DL           EK+  P     G+  A++ G   ++E SA T   +  +F+
Sbjct: 118 ILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFD 177
Query: 190 E 190
           E
Sbjct: 178 E 178

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 73.6 bits (179), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 54/174 (31%), Positives = 88/174 (50%), Gaps = 9/174 (5%)
Query: 23  NAGSSDAKNLR--VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDS 80
           N G+   +N +  +K+V++GD  VGK+C++L F +G+  PT+ V       S  +  ++ 
Sbjct: 10  NTGAGKIENGKKALKIVVVGDGAVGKTCLLLAFSKGEI-PTAYVPTVFENFSHVMKYKNE 68
Query: 81  TTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPD 139
             +   +WDTAGQE Y  L PL Y         + + +  SF N +  W  E+ KH    
Sbjct: 69  EFI-LHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEI-KHYIDT 126
Query: 140 IVMALVGNKADLHE--KREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFEE 190
               LVG K DL +    +V  Q+G +  +K G   +IE S+     +N++FE+
Sbjct: 127 AKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEK 180

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 80/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 88
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E++ H  P+  + LVG K DL 
Sbjct: 89  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLR 147
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEE 190
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E
Sbjct: 148 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 198

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 53/181 (29%), Positives = 83/181 (45%), Gaps = 17/181 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAG 
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGL 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E+ +H  P+  + LVG K DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLR 120
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKRLPRPS 199
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E  + +  P 
Sbjct: 121 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP 180
Query: 200 P 200
           P
Sbjct: 181 P 181

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 80/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 14  IKCVVVGDGAVGKTCLLISYTTNAFSGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 71
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E+ +H  P+  + LVG K DL 
Sbjct: 72  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLR 130
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEE 190
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E
Sbjct: 131 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 181

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 80/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 23  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 80
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E+ +H  P+  + LVG K DL 
Sbjct: 81  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLR 139
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEE 190
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E
Sbjct: 140 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 190

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 80/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E+ +H  P+  + LVG K DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLR 120
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEE 190
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E
Sbjct: 121 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 171

>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 = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 80/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E+ +H  P+  + LVG K DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLR 120
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEE 190
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E
Sbjct: 121 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 171

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 53/181 (29%), Positives = 83/181 (45%), Gaps = 17/181 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAG 
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGL 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E+ +H  P+  + LVG K DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLR 120
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKRLPRPS 199
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E  + +  P 
Sbjct: 121 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP 180
Query: 200 P 200
           P
Sbjct: 181 P 181

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 80/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E+ +H  P+  + LVG K DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLR 120
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEE 190
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E
Sbjct: 121 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 171

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 80/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E+ +H  P+  + LVG K DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLR 120
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEE 190
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E
Sbjct: 121 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 171

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 53/179 (29%), Positives = 83/179 (46%), Gaps = 17/179 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   DS  V   +WDTAGQ
Sbjct: 10  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DSKPVNLGLWDTAGQ 67
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP S+ N    W  E++ H  P   + LVG K DL 
Sbjct: 68  EDYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHH-CPSTPIILVGTKLDLR 126
Query: 153 ----------EKREVPAQ--DGIEYA-EKNGMFFIETSAKTADNINQLFEEIAKRLPRP 198
                     EK+  P     G+  A E + + ++E SA T   +  +F+E  + +  P
Sbjct: 127 DDKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDEAIRAVLCP 185

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 78/159 (49%), Gaps = 4/159 (2%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           ++ + G  GVGKS +VLRFV+G F  +   TV  ++  Q I+  D +    +I DT G  
Sbjct: 5   RVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISC-DKSICTLQITDTTGSH 62
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQ--KHGSPDIVMALVGNKADLH 152
           ++ A+  L           Y ITS  S  + +   +++   K     I + LVGNK D  
Sbjct: 63  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 122
Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
             REV + +    A      F+ETSAK   N+ +LF+E+
Sbjct: 123 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQEL 161

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 64/204 (31%), Positives = 97/204 (47%), Gaps = 17/204 (8%)
Query: 11  SSGQSGGLNNL-------ENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRF--VRGQFDPT 61
           SSG   G  NL       ++  SS++ N   ++VL+G+ GVGKS +   F  V    D  
Sbjct: 8   SSGVDLGTENLYFQSMSTDSVISSESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSD 67
Query: 62  SKVTVGASFLSQTIAL--QDSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSP 119
            +V +G     +T+ +  + +T +  ++W+  G+  +  L     +        Y IT  
Sbjct: 68  CEV-LGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDR 124
Query: 120 DSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSA 178
            SF KA     +L++   + DI + LVGNK+DL   REV   +G   A      FIETSA
Sbjct: 125 ASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSA 184
Query: 179 KTADNINQLFEEIAK--RLPRPSP 200
               N+ +LFE I +  RL R S 
Sbjct: 185 AVQHNVKELFEGIVRQVRLRRDSK 208

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 54/180 (30%), Positives = 82/180 (45%), Gaps = 17/180 (9%)
Query: 25  GSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVK 84
           G S      +K V++GD  VGK+C+++ +    F      TV  ++ +  +   DS  V 
Sbjct: 2   GGSGGSMQAIKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DSKPVN 59
Query: 85  FEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMA 143
             +WDTAGQE Y  L PL Y         + + SP S+ N    W  E++ H  P   + 
Sbjct: 60  LGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHH-CPSTPII 118
Query: 144 LVGNKADLH----------EKREVPAQ--DGIEYA-EKNGMFFIETSAKTADNINQLFEE 190
           LVG K DL           EK+  P     G+  A E + + ++E SA T   +  +F+E
Sbjct: 119 LVGTKLDLRDDKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDE 178

>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 = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 42/149 (28%), Positives = 76/149 (51%), Gaps = 3/149 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++F++  F      T+  S+  Q +   D    + +I DTAGQE + A+   Y R
Sbjct: 18  KSALTIQFIQSYFVTDYDPTIEDSYTKQCVI--DDRAARLDILDTAGQEEFGAMREQYMR 75
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPD-IVMALVGNKADLHEKREVPAQDGIE 164
                   + +T   SF +   + +++ +    D   M L+GNKADL  +R+V  ++G +
Sbjct: 76  TGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQ 135
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAK 193
            A +  + ++E SAK   N++Q F E+ +
Sbjct: 136 LARQLKVTYMEASAKIRMNVDQAFHELVR 164

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 71.2 bits (173), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 53/175 (30%), Positives = 82/175 (46%), Gaps = 25/175 (14%)
Query: 34  VKLVLLGDSGVGKSCIVLRF----VRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           +K V++GD  VGK+C+++ +    + G++ PT      A+       + D   V   +WD
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNALPGEYIPTVFDNYSAN------VMVDGKPVNLGLWD 84
Query: 90  TAGQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNK 148
           TAGQE Y  L PL Y         + + SP SF N    W  E++ H  P+  + LVG K
Sbjct: 85  TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTK 143
Query: 149 ADLH----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEE 190
            DL           EK+  P     G+  A++ G   ++E SA T   +  +F+E
Sbjct: 144 LDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 198

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 70.9 bits (172), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 49/171 (28%), Positives = 79/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 62
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E++ H  P   + LVG K DL 
Sbjct: 63  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-CPHTPILLVGTKLDLR 121
Query: 153 EKRE------------VPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEE 190
           + ++            +    G+  A + G + ++E SA T   +  +F+E
Sbjct: 122 DDKDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDE 172

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 70.9 bits (172), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 49/171 (28%), Positives = 79/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 62
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E++ H  P   + LVG K DL 
Sbjct: 63  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-CPHTPILLVGTKLDLR 121
Query: 153 EKRE------------VPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEE 190
           + ++            +    G+  A + G + ++E SA T   +  +F+E
Sbjct: 122 DDKDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDE 172

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 70.5 bits (171), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 76/153 (49%), Gaps = 4/153 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 74
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF    ++ +++++   S D+ M LVGNK+DL   R V  +   +
Sbjct: 75  TGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDL-PSRTVDTKQAQD 133
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
            A   G+ FIETSAKT   ++  F  + + + +
Sbjct: 134 LARSYGIPFIETSAKTRQGVDDAFYTLVREIRK 166

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 70.5 bits (171), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 76/153 (49%), Gaps = 4/153 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 74
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF    ++ +++++   S D+ M LVGNK+DL   R V  +   +
Sbjct: 75  TGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDL-PSRTVDTKQAQD 133
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
            A   G+ FIETSAKT   ++  F  + + + +
Sbjct: 134 LARSYGIPFIETSAKTRQGVDDAFYTLVREIRK 166

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 70.5 bits (171), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 49/171 (28%), Positives = 79/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E+ +H  P   + LVG K DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPHTPILLVGTKLDLR 120
Query: 153 EKRE------------VPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEE 190
           + ++            +    G+  A + G + ++E SA T   +  +F+E
Sbjct: 121 DDKDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDE 171

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 51/171 (29%), Positives = 79/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAG 
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGL 88
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E++ H  P+  + LVG K DL 
Sbjct: 89  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLR 147
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEE 190
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E
Sbjct: 148 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 198

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 54/184 (29%), Positives = 86/184 (46%), Gaps = 18/184 (9%)
Query: 29  AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIW 88
           AK L +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +W
Sbjct: 152 AKEL-IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLW 208
Query: 89  DTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGN 147
           DTAG E Y  L PL Y         + + SP SF+  +  W  E+ +H  P+  + LVG 
Sbjct: 209 DTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEV-RHHCPNTPIILVGT 267
Query: 148 KADLH----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEEIAKR 194
           K DL           EK+  P     G+  A++ G   ++E SA T   +  +F+E  + 
Sbjct: 268 KLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRA 327
Query: 195 LPRP 198
           +  P
Sbjct: 328 VLCP 331

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 51/171 (29%), Positives = 79/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAG 
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGL 64
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N    W  E++ H  P+  + LVG K DL 
Sbjct: 65  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLR 123
Query: 153 ----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEE 190
                     EK+  P     G+  A++ G   ++E SA T   +  +F+E
Sbjct: 124 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 174

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 53/176 (30%), Positives = 83/176 (47%), Gaps = 18/176 (10%)
Query: 29  AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIW 88
           AK L +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +W
Sbjct: 152 AKEL-IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLW 208
Query: 89  DTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGN 147
           DTAG E Y  L PL Y         + + SP SF+  +  W  E+ +H  P+  + LVG 
Sbjct: 209 DTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEV-RHHCPNTPIILVGT 267
Query: 148 KADLH----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEE 190
           K DL           EK+  P     G+  A++ G   ++E SA T   +  +F+E
Sbjct: 268 KLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 323

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 56/184 (30%), Positives = 90/184 (48%), Gaps = 9/184 (4%)
Query: 15  SGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQT 74
           S G  NL   G ++      KLV++G  GVGKS + ++ ++  F      T+  S+  Q 
Sbjct: 8   SSGRENLYFQGMTE-----YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQV 62
Query: 75  IALQDSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK 134
           +   D  T   +I DTAG E Y+A+   Y R        + I +  SF    ++ +++++
Sbjct: 63  VI--DGETCLLDILDTAGHEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKR 120
Query: 135 -HGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
              S D+ M LVGNK DL   R V  +   + A   G+ FIETSAKT   ++  F  + +
Sbjct: 121 VKDSEDVPMVLVGNKCDL-PSRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVR 179
Query: 194 RLPR 197
            + +
Sbjct: 180 EIRK 183

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 42/149 (28%), Positives = 73/149 (48%), Gaps = 3/149 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++F++  F      T+  S+    I   D    + +I DTAGQE + A+   Y R
Sbjct: 22  KSALTIQFIQSYFVSDYDPTIEDSYTK--ICSVDGIPARLDILDTAGQEEFGAMREQYMR 79
Query: 106 GXXXXXXXYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I    SFN+  + + + L+     D  + LVGNKADL  +R+VP  +   
Sbjct: 80  AGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASA 139
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAK 193
           +   + + + E SAK   N+++ FE++ +
Sbjct: 140 FGASHHVAYFEASAKLRLNVDEAFEQLVR 168

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 53/176 (30%), Positives = 83/176 (47%), Gaps = 18/176 (10%)
Query: 29  AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIW 88
           AK L +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +W
Sbjct: 152 AKEL-IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLW 208
Query: 89  DTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGN 147
           DTAG E Y  L PL Y         + + SP SF+  +  W  E+ +H  P+  + LVG 
Sbjct: 209 DTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEV-RHHCPNTPIILVGT 267
Query: 148 KADLH----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKTADNINQLFEE 190
           K DL           EK+  P     G+  A++ G   ++E SA T   +  +F+E
Sbjct: 268 KLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 323

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 58/182 (31%), Positives = 89/182 (48%), Gaps = 9/182 (4%)
Query: 15  SGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQT 74
           S G  NL   G ++      KLV++G  GVGKS + ++ ++  F      T+  S+  Q 
Sbjct: 8   SSGRENLYFQGMTE-----YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQV 62
Query: 75  IALQDSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK 134
           +   D  T   +I DTAGQE Y+A+   Y R        + I +  SF     + +++++
Sbjct: 63  VI--DGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKR 120
Query: 135 -HGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
              S D+ M LVGNK DL   R V  +   E A+  G+ FIETSAKT   +   F  + +
Sbjct: 121 VKDSDDVPMVLVGNKCDL-PTRTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVR 179
Query: 194 RL 195
            +
Sbjct: 180 EI 181

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 50/158 (31%), Positives = 77/158 (48%), Gaps = 3/158 (1%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+ +LG   VGKS + ++FV GQF  ++  T+  +F ++ I + +      ++ DTAGQ+
Sbjct: 6   KIAILGYRSVGKSSLTIQFVEGQFVDSADPTIENTF-TKLITV-NGQEYHLQLVDTAGQD 63
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWV-KELQKHGSPDIVMALVGNKADLHE 153
            Y+     Y          Y +TS  SF   +    K L   G   I + LVGNK DLH 
Sbjct: 64  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM 123
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
           +R +  ++G   AE     F+E+SAK       +F  I
Sbjct: 124 ERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRI 161

>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 = 68.6 bits (166), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 59/192 (30%), Positives = 89/192 (46%), Gaps = 19/192 (9%)
Query: 25  GSSDAKNLR-VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTV 83
           GSS +  ++ +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+
Sbjct: 1   GSSGSSGMQTIKCVVVGDGAVGKNCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTL 60
Query: 84  KFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVM 142
              ++DTAGQE Y  L PL Y         + + SP SF N  + WV E+  H  P    
Sbjct: 61  G--LFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPF 117
Query: 143 ALVGNKADLH------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFE 189
            LVG + DL       EK     Q  I  E AEK       + ++E SA T   +  +F+
Sbjct: 118 LLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 177
Query: 190 E-IAKRLPRPSP 200
           E I   L  P P
Sbjct: 178 EAILAALEPPEP 189

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 68.2 bits (165), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 50/158 (31%), Positives = 76/158 (48%), Gaps = 3/158 (1%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+ +LG   VGKS + ++FV GQF  +   T+  +F ++ I + +      ++ DTAGQ+
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITV-NGQEYHLQLVDTAGQD 65
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWV-KELQKHGSPDIVMALVGNKADLHE 153
            Y+     Y          Y +TS  SF   +    K L   G   I + LVGNK DLH 
Sbjct: 66  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM 125
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
           +R +  ++G   AE     F+E+SAK       +F  I
Sbjct: 126 ERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRI 163

>pdb|4Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 189

Iteration: 1
 Score = 67.8 bits (164), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 67.8 bits (164), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 23  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 80
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 81  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 139
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 140 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 170

>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 = 67.8 bits (164), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 74/151 (49%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDECDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK+DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 67.8 bits (164), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 50/158 (31%), Positives = 76/158 (48%), Gaps = 3/158 (1%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+ +LG   VGKS + ++FV GQF  +   T+  +F ++ I + +      ++ DTAGQ+
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITV-NGQEYHLQLVDTAGQD 65
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWV-KELQKHGSPDIVMALVGNKADLHE 153
            Y+     Y          Y +TS  SF   +    K L   G   I + LVGNK DLH 
Sbjct: 66  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM 125
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
           +R +  ++G   AE     F+E+SAK       +F  I
Sbjct: 126 ERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRI 163

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 50/158 (31%), Positives = 76/158 (48%), Gaps = 3/158 (1%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+ +LG   VGKS + ++FV GQF  +   T+  +F ++ I + +      ++ DTAGQ+
Sbjct: 3   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITV-NGQEYHLQLVDTAGQD 60
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWV-KELQKHGSPDIVMALVGNKADLHE 153
            Y+     Y          Y +TS  SF   +    K L   G   I + LVGNK DLH 
Sbjct: 61  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM 120
Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI 191
           +R +  ++G   AE     F+E+SAK       +F  I
Sbjct: 121 ERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRI 158

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 78
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 79  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 137
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 138 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 168

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 78
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 79  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 137
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 138 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 168

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 56/182 (30%), Positives = 83/182 (45%), Gaps = 18/182 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 120
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE-IAKRLPRP 198
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E I   L  P
Sbjct: 121 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPP 180
Query: 199 SP 200
            P
Sbjct: 181 EP 182

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 56/182 (30%), Positives = 83/182 (45%), Gaps = 18/182 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 63
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 64  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 122
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE-IAKRLPRP 198
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E I   L  P
Sbjct: 123 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPP 182
Query: 199 SP 200
            P
Sbjct: 183 EP 184

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 56/182 (30%), Positives = 83/182 (45%), Gaps = 18/182 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 64
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 65  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 123
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE-IAKRLPRP 198
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E I   L  P
Sbjct: 124 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPP 183
Query: 199 SP 200
            P
Sbjct: 184 EP 185

>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 = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 56/182 (30%), Positives = 83/182 (45%), Gaps = 18/182 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 64
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 65  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 123
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE-IAKRLPRP 198
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E I   L  P
Sbjct: 124 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPP 183
Query: 199 SP 200
            P
Sbjct: 184 EP 185

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 56/182 (30%), Positives = 83/182 (45%), Gaps = 18/182 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 14  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 71
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 72  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 130
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE-IAKRLPRP 198
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E I   L  P
Sbjct: 131 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPP 190
Query: 199 SP 200
            P
Sbjct: 191 EP 192

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 67.4 bits (163), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 56/182 (30%), Positives = 83/182 (45%), Gaps = 18/182 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 11  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 68
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 69  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 127
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE-IAKRLPRP 198
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E I   L  P
Sbjct: 128 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPP 187
Query: 199 SP 200
            P
Sbjct: 188 EP 189

>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 = 67.0 bits (162), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 56/182 (30%), Positives = 83/182 (45%), Gaps = 18/182 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 120
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE-IAKRLPRP 198
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E I   L  P
Sbjct: 121 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPP 180
Query: 199 SP 200
            P
Sbjct: 181 EP 182

>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 = 67.0 bits (162), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 56/182 (30%), Positives = 83/182 (45%), Gaps = 18/182 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 62
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 63  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 121
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE-IAKRLPRP 198
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E I   L  P
Sbjct: 122 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPP 181
Query: 199 SP 200
            P
Sbjct: 182 EP 183

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 67.0 bits (162), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 55/173 (31%), Positives = 84/173 (48%), Gaps = 10/173 (5%)
Query: 35  KLVLLGDSGVGKSCIVLRF--VRGQFDPTSKVTVGASFLSQTIAL--QDSTTVKFEIWDT 90
           ++VL+G+ GVGKS +   F  V    D   +V +G     +T+ +  + +T +  ++W+ 
Sbjct: 8   RVVLIGEQGVGKSTLANIFAGVHDSMDSDXEV-LGEDTYERTLMVDGESATIILLDMWEN 66
Query: 91  AGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKA 149
            G+  +  L     +        Y IT   SF KA     +L++   + DI + LVGNK+
Sbjct: 67  KGENEW--LHDHXMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKS 124
Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK--RLPRPSP 200
           DL   REV   +G   A      FIETSA    N+ +LFE I +  RL R S 
Sbjct: 125 DLVRXREVSVSEGRAXAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRRDSK 177

>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 = 67.0 bits (162), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEESYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 67.0 bits (162), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 56/182 (30%), Positives = 83/182 (45%), Gaps = 18/182 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 120
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE-IAKRLPRP 198
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E I   L  P
Sbjct: 121 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPP 180
Query: 199 SP 200
            P
Sbjct: 181 EP 182

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 67.0 bits (162), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVEKYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 67.0 bits (162), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 55/173 (31%), Positives = 84/173 (48%), Gaps = 10/173 (5%)
Query: 35  KLVLLGDSGVGKSCIVLRF--VRGQFDPTSKVTVGASFLSQTIAL--QDSTTVKFEIWDT 90
           ++VL+G+ GVGKS +   F  V    D   +V +G     +T+ +  + +T +  ++W+ 
Sbjct: 8   RVVLIGEQGVGKSTLANIFAGVHDSMDSDXEV-LGEDTYERTLMVDGESATIILLDMWEN 66
Query: 91  AGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKA 149
            G+  +  L     +        Y IT   SF KA     +L++   + DI + LVGNK+
Sbjct: 67  KGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKS 124
Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK--RLPRPSP 200
           DL   REV   +G   A      FIETSA    N+ +LFE I +  RL R S 
Sbjct: 125 DLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRRDSK 177

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 67.0 bits (162), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 57/200 (28%), Positives = 85/200 (42%), Gaps = 36/200 (18%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAGQ
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQ 63
Query: 94  ERYAALAPLYYRGXXXXXXXYDIT-------------------SPDSF-NKAQYWVKELQ 133
           E Y  L PL Y          DIT                   SP SF N    W  E++
Sbjct: 64  EDYDRLRPLSYPQTVGETYGKDITSRGKDKPIADVFLICFSLVSPASFENVRAKWYPEVR 123
Query: 134 KHGSPDIVMALVGNKADLH----------EKREVPAQ--DGIEYAEKNGMF-FIETSAKT 180
            H  P+  + LVG K DL           EK+  P     G+  A++ G   ++E SA T
Sbjct: 124 HH-CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALT 182
Query: 181 ADNINQLFEEIAKRLPRPSP 200
              +  +F+E  + +  P P
Sbjct: 183 QRGLKTVFDEAIRAVLCPPP 202

>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 = 66.6 bits (161), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDKYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 66.6 bits (161), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 66.6 bits (161), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|6Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 171

Iteration: 1
 Score = 66.6 bits (161), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2Q21|A Chain A, Crystal Structures At 2.2 Angstroms Resolution Of The Catalytic Domains Of Normal Ras Protein And An Oncogenic Mutant Complexed With Gsp Length = 171

Iteration: 1
 Score = 66.6 bits (161), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 66.6 bits (161), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 56/182 (30%), Positives = 83/182 (45%), Gaps = 18/182 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 4   IKCVVVGDVAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 120
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE-IAKRLPRP 198
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E I   L  P
Sbjct: 121 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPP 180
Query: 199 SP 200
            P
Sbjct: 181 EP 182

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 66.6 bits (161), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDEYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 66.6 bits (161), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 56/182 (30%), Positives = 82/182 (45%), Gaps = 18/182 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F P+  V       + T+ +         ++DTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKF-PSEYVPTVFDNYAVTVXI-GGEPYTLGLFDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 120
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE-IAKRLPRP 198
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E I   L  P
Sbjct: 121 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPP 180
Query: 199 SP 200
            P
Sbjct: 181 EP 182

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 66.6 bits (161), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEFDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      ++  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 22  KSALTIQLIQNHFVDEYDPSIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 79
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 80  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 138
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 139 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 169

>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 = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 72/151 (47%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + +  
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREF 163

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 79/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 65
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 66  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 124
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE 190
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E
Sbjct: 125 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDE 175

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 55/174 (31%), Positives = 84/174 (48%), Gaps = 10/174 (5%)
Query: 31  NLRVKLVLLGDSGVGKSCIVLRF--VRGQFDPTSKVTVGASFLSQTIAL--QDSTTVKFE 86
           N   ++VL+G+ GVGKS +   F  V    D   +V +G     +T+ +  + +T +  +
Sbjct: 4   NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEV-LGEDTYERTLMVDGESATIILLD 62
Query: 87  IWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALV 145
           +W+  G+  +  L     +        Y IT   SF KA     +L++   + DI + LV
Sbjct: 63  MWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILV 120
Query: 146 GNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK--RLPR 197
           GNK+DL   REV   +G   A      FIETSA    N+ +LFE I +  RL R
Sbjct: 121 GNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRR 174

>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 = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 79/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 63
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 64  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 122
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE 190
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E
Sbjct: 123 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDE 173

>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 = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGN+ DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNRCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 47/174 (27%), Positives = 85/174 (48%), Gaps = 19/174 (10%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASF-LSQTIALQDSTTVKFEIWDT 90
           L +K V++GD  VGK+C+++ +    F      TV   + +S T+           ++DT
Sbjct: 17  LMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVG---GKQYLLGLYDT 73
Query: 91  AGQERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKA 149
           AGQE Y  L PL Y         + + +P SF N  + WV EL+++ +P++   L+G + 
Sbjct: 74  AGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPFLLIGTQI 132
Query: 150 DLHE------------KREVPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEE 190
           DL +            ++ +  + G + A++ G   ++E SA T   +  +F+E
Sbjct: 133 DLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDE 186

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 79/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 120
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE 190
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E
Sbjct: 121 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDE 171

>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 = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 79/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 120
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE 190
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E
Sbjct: 121 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDE 171

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 79/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 120
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE 190
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E
Sbjct: 121 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDE 171

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           K+ + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 16  KNALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 79/171 (46%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 120
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE 190
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E
Sbjct: 121 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDE 171

>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 = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      ++  S+  Q +   D  T   +I DTAGQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPSIEDSYRKQVVI--DGETCLLDILDTAGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 72/151 (47%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DT GQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTGGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 72/151 (47%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DT GQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTTGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 72/151 (47%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAG E Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGHEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 73/151 (48%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAG+E Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGKEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 78/171 (45%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F P+  V       + T+ +         ++DTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKF-PSEYVPAVFDNYAVTVMI-GGEPYTLGLFDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 120
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE 190
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E
Sbjct: 121 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDE 171

>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 = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 55/182 (30%), Positives = 82/182 (45%), Gaps = 18/182 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAG 
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGL 65
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 66  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 124
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE-IAKRLPRP 198
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E I   L  P
Sbjct: 125 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPP 184
Query: 199 SP 200
            P
Sbjct: 185 EP 186

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 72/151 (47%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D      +I DTAGQE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGEICLLDILDTAGQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 64.7 bits (156), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 72/151 (47%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAG E Y+A+   Y R
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGLEEYSAMRDQYMR 78
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 79  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 137
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 138 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 168

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 64.7 bits (156), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 52/171 (30%), Positives = 77/171 (45%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+     DTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLR--DTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 120
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE 190
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E
Sbjct: 121 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDE 171

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score = 64.3 bits (155), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 55/182 (30%), Positives = 82/182 (45%), Gaps = 18/182 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +   +  T+   ++DTAG 
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGL 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 120
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE-IAKRLPRP 198
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E I   L  P
Sbjct: 121 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPP 180
Query: 199 SP 200
            P
Sbjct: 181 EP 182

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 72/151 (47%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTA QE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAAQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 82/169 (48%), Gaps = 19/169 (11%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ-DSTTVKFEIW 88
           +N++ K+V++GDS  GK+ ++  F +  F      TV   F + T + + D+  ++  +W
Sbjct: 25  QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTV---FENYTASFEIDTQRIELSLW 81
Query: 89  DTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGN 147
           DT+G   Y  + PL Y         +DI+ P++ +   + W  E+Q+   P+  M LVG 
Sbjct: 82  DTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPNTKMLLVGC 140
Query: 148 KADL------------HEKREVPAQDGIEYAEKNG-MFFIETSAKTADN 183
           K+DL            H +  V    G   A++ G   +IE SA  ++N
Sbjct: 141 KSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSEN 189

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 72/151 (47%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTA QE Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAAQEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 72/151 (47%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAG E Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGVEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|721P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 72/151 (47%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAG E Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGLEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 72/151 (47%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAG E Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGGEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 63.5 bits (153), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 82/169 (48%), Gaps = 19/169 (11%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ-DSTTVKFEIW 88
           +N++ K+V++GDS  GK+ ++  F +  F      TV   F + T + + D+  ++  +W
Sbjct: 4   QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTV---FENYTASFEIDTQRIELSLW 60
Query: 89  DTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGN 147
           DT+G   Y  + PL Y         +DI+ P++ +   + W  E+Q+   P+  M LVG 
Sbjct: 61  DTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPNTKMLLVGC 119
Query: 148 KADL------------HEKREVPAQDGIEYAEKNG-MFFIETSAKTADN 183
           K+DL            H +  V    G   A++ G   +IE SA  ++N
Sbjct: 120 KSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSEN 168

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 72/151 (47%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAG E Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGIEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 51/171 (29%), Positives = 78/171 (45%), Gaps = 17/171 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +       TV  ++    +   +  T+   ++DTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKLPSEYVPTVFDNYAVTVMIGGEPYTLG--LFDTAGQ 61
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E Y  L PL Y         + + SP SF N  + WV E+  H  P     LVG + DL 
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLR 120
Query: 153 ------EKREVPAQDGI--EYAEK-----NGMFFIETSAKTADNINQLFEE 190
                 EK     Q  I  E AEK       + ++E SA T   +  +F+E
Sbjct: 121 DDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDE 171

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 82/169 (48%), Gaps = 19/169 (11%)
Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ-DSTTVKFEIW 88
           +N++ K+V++GDS  GK+ ++  F +  F      TV   F + T + + D+  ++  +W
Sbjct: 20  QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTV---FENYTASFEIDTQRIELSLW 76
Query: 89  DTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGN 147
           DT+G   Y  + PL Y         +DI+ P++ +   + W  E+Q+   P+  M LVG 
Sbjct: 77  DTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPNTKMLLVGC 135
Query: 148 KADL------------HEKREVPAQDGIEYAEKNG-MFFIETSAKTADN 183
           K+DL            H +  V    G   A++ G   +IE SA  ++N
Sbjct: 136 KSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSEN 184

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 63.2 bits (152), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 72/151 (47%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAG E Y+A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETXLLDILDTAGGEEYSAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 72/151 (47%), Gaps = 4/151 (2%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE  +A+   Y R
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVI--DGETCLLDILDTAGQEEASAMRDQYMR 73
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE 164
                   + I +  SF     + +++++   S D+ M LVGNK DL   R V ++   +
Sbjct: 74  TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQD 132
Query: 165 YAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            A   G+ +IETSAKT   +   F  + + +
Sbjct: 133 LARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 49/148 (33%), Positives = 75/148 (50%), Gaps = 5/148 (3%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS +VLRFV+G F  T   T+  ++  Q I+  D +    +I DT G  ++ A+  L   
Sbjct: 21  KSSLVLRFVKGTFRDTYIPTIEDTY-RQVISC-DKSVCTLQITDTTGSHQFPAMQRLSIS 78
Query: 106 GXXXXXXXYDITSPDSFNKAQYWVKEL-QKHGS-PDIVMALVGNKADLHEKREVPAQDGI 163
                   + +TS  S  +     K + Q  GS  DI + LVGNK D   +REV  ++  
Sbjct: 79  KGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCD-ETQREVDTREAQ 137
Query: 164 EYAEKNGMFFIETSAKTADNINQLFEEI 191
             A++    F+ETSAK   N+ +LF+E+
Sbjct: 138 AVAQEWKCAFMETSAKMNYNVKELFQEL 165

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 51/155 (32%), Positives = 83/155 (53%), Gaps = 11/155 (7%)
Query: 46  KSCIVLRFVRGQF----DPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAP 101
           KS + ++FV G F    DPT +      F  + I +  S +V  EI DTAG E++A++  
Sbjct: 16  KSALTVQFVTGTFIEKYDPTIE-----DFYRKEIEVDSSPSV-LEILDTAGTEQFASMRD 69
Query: 102 LYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEKREVPAQ 160
           LY +        Y + +  SF   +    ++ +    + V + LVGNK DL  +REV + 
Sbjct: 70  LYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSS 129
Query: 161 DGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           +G   AE+ G  F+ETSAK+   +++LF EI +++
Sbjct: 130 EGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQM 164

>pdb|2YC2|C Chain C, Intraflagellar Transport Complex 25-27 From Chlamydomonas Length = 208

Iteration: 1
 Score = 62.4 bits (150), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 48/159 (30%), Positives = 76/159 (47%), Gaps = 15/159 (9%)
Query: 31  NLRVKLVLLGDSGVGKSCIVLRFVR--GQFDPTSKVTVGASFLSQTIALQDST-TVKFEI 87
            LR K+ ++G++ VGKS ++  F     +F     +T G   +   + + D+T +V+  +
Sbjct: 18  TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFL 77
Query: 88  WDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPD----IVMA 143
            DTAG + Y      Y+ G       +D++S +SF   + W  EL K   PD    +   
Sbjct: 78  LDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWF-ELLKSARPDRERPLRAV 136
Query: 144 LVGNKADL----HEKREVPAQDGIEYAEKNGMFFIETSA 178
           LV NK DL    H+ R   AQD   +A  N + F + SA
Sbjct: 137 LVANKTDLPPQRHQVRLDMAQD---WATTNTLDFFDVSA 172

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 61.2 bits (147), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 46/153 (30%), Positives = 71/153 (46%), Gaps = 10/153 (6%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++F +  F P    T+  S+L  T    D+     ++ DTAGQE ++A+   Y R
Sbjct: 31  KSALTIQFFQKIFVPEYDPTIEDSYLKHTEI--DNQWAILDVLDTAGQEEFSAMREQYMR 88
Query: 106 GXXXXXXXYDITSPDSFNKA----QYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQD 161
                   Y +T   SF       Q  ++   +   P   M LV NK DL   R+V    
Sbjct: 89  TGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFP---MILVANKVDLMHLRKVTRDQ 145
Query: 162 GIEYAEKNGMFFIETSAKTAD-NINQLFEEIAK 193
           G E A K  + +IETSAK    N+++ F ++ +
Sbjct: 146 GKEMATKYNIPYIETSAKDPPLNVDKTFHDLVR 178

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 46/153 (30%), Positives = 71/153 (46%), Gaps = 10/153 (6%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++F +  F P    T+  S+L  T    D+     ++ DTAGQE ++A+   Y R
Sbjct: 26  KSALTIQFFQKIFVPDYDPTIEDSYLKHTEI--DNQWAILDVLDTAGQEEFSAMREQYMR 83
Query: 106 GXXXXXXXYDITSPDSFNKA----QYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQD 161
                   Y +T   SF       Q  ++   +   P   M LV NK DL   R+V    
Sbjct: 84  TGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFP---MILVANKVDLMHLRKVTRDQ 140
Query: 162 GIEYAEKNGMFFIETSAKTAD-NINQLFEEIAK 193
           G E A K  + +IETSAK    N+++ F ++ +
Sbjct: 141 GKEMATKYNIPYIETSAKDPPLNVDKTFHDLVR 173

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 76/158 (48%), Gaps = 5/158 (3%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIAL--QDSTTVKFEIWDTAG 92
           ++VLLGD GVGK+ +   F  G+ +      +G     +T+ +  +D+T V  + W+   
Sbjct: 6   RVVLLGDPGVGKTSLASLFA-GKQERDLHEQLGEDVYERTLTVDGEDTTLVVVDTWEAEK 64
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADL 151
            ++  +      +G       Y I    SF  A     +L++ H +  + + LVGNKADL
Sbjct: 65  LDKSWSQESCL-QGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADL 123
Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE 189
              REV  ++G   A      FIETSA    N+ +LFE
Sbjct: 124 ARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFE 161

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 59.3 bits (142), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 53/176 (30%), Positives = 81/176 (46%), Gaps = 16/176 (9%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASF-LSQTIALQDSTTVKFEIWDTAGQ 93
           K++LLG  GVGKS +  R   G  D       G ++  S  +  ++++ + ++IW+  G 
Sbjct: 9   KVLLLGAPGVGKSALA-RIFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGG 67
Query: 94  E----RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNK 148
                   A+   Y          Y +T   SF KA     +L++   + D+ + LVGNK
Sbjct: 68  RWLPGHCMAMGDAYV-------IVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNK 120
Query: 149 ADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK--RLPRPSPSS 202
           +DL   REV   +G   A      FIETSA    N+  LFE + +  RL R S  +
Sbjct: 121 SDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRRDSKEA 176

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 59.3 bits (142), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 53/173 (30%), Positives = 80/173 (46%), Gaps = 16/173 (9%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASF-LSQTIALQDSTTVKFEIWDTAGQ 93
           K++LLG  GVGKS +  R   G  D       G ++  S  +  ++++ + ++IW+  G 
Sbjct: 9   KVLLLGAPGVGKSALA-RIFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGG 67
Query: 94  E----RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNK 148
                   A+   Y          Y +T   SF KA     +L++   + D+ + LVGNK
Sbjct: 68  RWLPGHCMAMGDAYV-------IVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNK 120
Query: 149 ADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK--RLPRPS 199
           +DL   REV   +G   A      FIETSA    N+  LFE + +  RL R S
Sbjct: 121 SDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRRDS 173

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 58.5 bits (140), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 49/167 (29%), Positives = 78/167 (46%), Gaps = 14/167 (8%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASF-LSQTIALQDSTTVKFEIWDTAGQ 93
           K++LLG  GVGKS +  R   G  D       G ++  S  +  ++++ + ++IW+  G 
Sbjct: 4   KVLLLGAPGVGKSALA-RIFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGG 62
Query: 94  E----RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNK 148
                   A+   Y          Y +T   SF KA     +L++   + D+ + LVGNK
Sbjct: 63  RWLPGHCMAMGDAY-------VIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNK 115
Query: 149 ADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           +DL   REV   +G   A      FIETSA    N+  LFE + +++
Sbjct: 116 SDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 162

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score = 57.8 bits (138), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 56/204 (27%), Positives = 96/204 (47%), Gaps = 22/204 (10%)
Query: 15  SGGLNNLENAGSSDAKNL-RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQ 73
           S G  NL   G +    + R KLVL+GD   GK+ ++    +  +  T   TV   F + 
Sbjct: 8   SSGRENLYFQGRAPQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTV---FENY 64
Query: 74  TIALQ-DSTTVKFEIWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKA-QYWVKE 131
           T  L+ +   V+  +WDT+G   Y  + PL Y         +DI+ P++ + A + W  E
Sbjct: 65  TACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTE 124
Query: 132 LQKHGSPDIVMALVGNKADL-----------HEKR-EVPAQDGIEYAEKNGM-FFIETSA 178
           +  +  P   + L+G K DL           H+K+  +  + G   A++ G   ++E SA
Sbjct: 125 ILDY-CPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSA 183
Query: 179 KTAD-NINQLFEEIAKR-LPRPSP 200
            T++ +I+ +F   +   L +PSP
Sbjct: 184 FTSEKSIHSIFRTASMLCLNKPSP 207

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 57.8 bits (138), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 45/153 (29%), Positives = 70/153 (45%), Gaps = 10/153 (6%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++F +  F      T+  S+L  T    D+     ++ DTAGQE ++A+   Y R
Sbjct: 31  KSALTIQFFQKIFVDDYDPTIEDSYLKHTEI--DNQWAILDVLDTAGQEEFSAMREQYMR 88
Query: 106 GXXXXXXXYDITSPDSFNKA----QYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQD 161
                   Y +T   SF       Q  ++   +   P   M LV NK DL   R+V    
Sbjct: 89  TGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFP---MILVANKVDLMHLRKVTRDQ 145
Query: 162 GIEYAEKNGMFFIETSAKTAD-NINQLFEEIAK 193
           G E A K  + +IETSAK    N+++ F ++ +
Sbjct: 146 GKEMATKYNIPYIETSAKDPPLNVDKTFHDLVR 178

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score = 57.4 bits (137), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 51/185 (27%), Positives = 89/185 (48%), Gaps = 21/185 (11%)
Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ-DSTTVKFEIWDTA 91
           R KLVL+GD   GK+ ++    +  +  T   TV   F + T  L+ +   V+  +WDT+
Sbjct: 10  RCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTV---FENYTACLETEEQRVELSLWDTS 66
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKAD 150
           G   Y  + PL Y         +DI+ P++ + A + W  E+  +  P   + L+G K D
Sbjct: 67  GSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDY-CPSTRVLLIGCKTD 125
Query: 151 L-----------HEKR-EVPAQDGIEYAEKNGM-FFIETSAKTAD-NINQLFEEIAKR-L 195
           L           H+K+  +  + G   A++ G   ++E SA T++ +I+ +F   +   L
Sbjct: 126 LRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCL 185
Query: 196 PRPSP 200
            +PSP
Sbjct: 186 NKPSP 190

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 57.0 bits (136), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 51/185 (27%), Positives = 89/185 (48%), Gaps = 21/185 (11%)
Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ-DSTTVKFEIWDTA 91
           R KLVL+GD   GK+ ++    +  +  T   TV   F + T  L+ +   V+  +WDT+
Sbjct: 11  RCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTV---FENYTACLETEEQRVELSLWDTS 67
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKAD 150
           G   Y  + PL Y         +DI+ P++ + A + W  E+  +  P   + L+G K D
Sbjct: 68  GSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDY-CPSTRVLLIGCKTD 126
Query: 151 L-----------HEKR-EVPAQDGIEYAEKNGM-FFIETSAKTAD-NINQLFEEIAKR-L 195
           L           H+K+  +  + G   A++ G   ++E SA T++ +I+ +F   +   L
Sbjct: 127 LRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCL 186
Query: 196 PRPSP 200
            +PSP
Sbjct: 187 NKPSP 191

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 69/153 (45%), Gaps = 10/153 (6%)
Query: 46  KSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR 105
           KS + ++F +  F      T+  S+   T    D+     ++ DTAGQE ++A+   Y R
Sbjct: 31  KSALTIQFFQKIFVDEYDPTIEDSYRKHTEI--DNQWAILDVLDTAGQEEFSAMREQYMR 88
Query: 106 GXXXXXXXYDITSPDSFNKA----QYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQD 161
                   Y +T   SF       Q  ++   +   P   M LV NK DL   R+V    
Sbjct: 89  TGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFP---MILVANKVDLMHLRKVTRDQ 145
Query: 162 GIEYAEKNGMFFIETSAKTAD-NINQLFEEIAK 193
           G E A K  + +IETSAK    N+++ F ++ +
Sbjct: 146 GKEMATKYNIPYIETSAKDPPLNVDKTFHDLVR 178

>pdb|3CBQ|A Chain A, Crystal Structure Of The Human Rem2 Gtpase With Bound Gdp Length = 195

Iteration: 1
 Score = 54.3 bits (129), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 56/188 (29%), Positives = 82/188 (43%), Gaps = 16/188 (8%)
Query: 15  SGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQT 74
           S G  NL   G  D      K++L+G+SGVGKS +   F   Q D   +         + 
Sbjct: 8   SSGRENLYFQGQKDGI---FKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERR 64
Query: 75  IAL--QDSTTVKFEIW---DTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWV 129
           I +  ++ T V ++IW   D  G  R   L              + +T   SF+K    +
Sbjct: 65  IMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQT-----GDAFLIVFSVTDRRSFSKVPETL 119
Query: 130 KELQKHGSP--DIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQL 187
             L+  G P  D+ + LVGNK+DL   REV  ++G   A       IETSA    N  +L
Sbjct: 120 LRLRA-GRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTREL 178
Query: 188 FEEIAKRL 195
           FE   +++
Sbjct: 179 FEGAVRQI 186

>pdb|4AII|A Chain A, Crystal Structure Of The Rat Rem2 Gtpase - G Domain Bound To Gdp Length = 180

Iteration: 1
 Score = 53.9 bits (128), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 47/165 (28%), Positives = 77/165 (46%), Gaps = 7/165 (4%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIAL--QDSTTVKFEIWDTAG 92
           K++LLG+SGVGKS +   F   Q D   ++        + I +  ++ T + ++IW+   
Sbjct: 14  KVMLLGESGVGKSTLAGTFGGLQGDNAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGD 73
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSP--DIVMALVGNKAD 150
              +  L     +        + +T   SF+K    +  L+  G P  D+ + LVGNK+D
Sbjct: 74  AGGW--LQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRA-GRPHHDLPVILVGNKSD 130
Query: 151 LHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           L   REV  ++G   A       IETSA    N  +LFE   +++
Sbjct: 131 LARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 175

>pdb|3Q85|A Chain A, Crystal Structure Of Rem2 G-Domain -Gtp Analog Complex Length = 169

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 46/165 (27%), Positives = 77/165 (46%), Gaps = 7/165 (4%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIAL--QDSTTVKFEIWDTAG 92
           K++L+G+SGVGKS +   F   Q D   ++        + I +  ++ T + ++IW+   
Sbjct: 4   KVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGD 63
Query: 93  QERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSP--DIVMALVGNKAD 150
              +  L     +        + +T   SF+K    +  L+  G P  D+ + LVGNK+D
Sbjct: 64  AGGW--LQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRA-GRPHHDLPVILVGNKSD 120
Query: 151 LHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           L   REV  ++G   A       IETSA    N  +LFE   +++
Sbjct: 121 LARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 165

>pdb|3C5C|A Chain A, Crystal Structure Of Human Ras-Like, Family 12 Protein In Complex With Gdp Length = 187

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 53/197 (26%), Positives = 83/197 (42%), Gaps = 32/197 (16%)
Query: 15  SGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQF----DPTSKVTVGASF 70
           S G  NL   G      L V L +LG  G GKS + ++F+  +F    DP  + T  +  
Sbjct: 8   SSGRENLYFQGP-----LEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSE- 61
Query: 71  LSQTIALQDSTTVKFEIWDTA------GQERYAALAPLYYRGXXXXXXXYDITSPDSFNK 124
             +T+   D   V   + DTA        ERY   A  +          Y + S  SF+ 
Sbjct: 62  --ETV---DHQPVHLRVMDTADLDTPRNCERYLNWAHAF-------LVVYSVDSRQSFDS 109
Query: 125 AQYWVKELQKHGSP---DIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT- 180
           +  +++ L  H       I   L+GNK D+ + R+V   +G+  A + G  F E SA   
Sbjct: 110 SSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLD 169
Query: 181 ADNINQLFEEIAKRLPR 197
            +++  +F E  +   R
Sbjct: 170 FEHVQHVFHEAVREARR 186

>pdb|3LVR|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In Trans State Soaked With Calcium Length = 497

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 34/122 (27%), Positives = 57/122 (46%), Gaps = 7/122 (5%)
Query: 31  NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           N  +++++LG    GK+ I+ +   GQ   T+  TVG  F  +T+  ++   VKF +WD 
Sbjct: 320 NKEMRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVG--FNVETVTYKN---VKFNVWDV 373
Query: 91  AGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKA 149
            GQ++   L   YY G        D    D  ++A Q   + +      D ++ +  NK 
Sbjct: 374 GGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQ 433
Query: 150 DL 151
           DL
Sbjct: 434 DL 435

>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By Human Arf6-Gtp Length = 175

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 38/136 (27%), Positives = 63/136 (46%), Gaps = 19/136 (13%)
Query: 31  NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           N  +++++LG    GK+ I+ +   GQ   T+  TVG  F  +T+  ++   VKF +WD 
Sbjct: 11  NKEMRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVG--FNVETVTYKN---VKFNVWDV 64
Query: 91  AGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK----HGSPDIVMALVG 146
            GQ++   L   YY G        D    D  ++A+   +EL +        D ++ +  
Sbjct: 65  GGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEAR---QELHRIINDREMRDAIILIFA 121
Query: 147 NKADL------HEKRE 156
           NK DL      HE +E
Sbjct: 122 NKQDLPDAMKPHEIQE 137

>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp Length = 174

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 38/136 (27%), Positives = 63/136 (46%), Gaps = 19/136 (13%)
Query: 31  NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           N  +++++LG    GK+ I+ +   GQ   T+  TVG  F  +T+  ++   VKF +WD 
Sbjct: 10  NKEMRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVG--FNVETVTYKN---VKFNVWDV 63
Query: 91  AGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK----HGSPDIVMALVG 146
            GQ++   L   YY G        D    D  ++A+   +EL +        D ++ +  
Sbjct: 64  GGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEAR---QELHRIINDREMRDAIILIFA 120
Query: 147 NKADL------HEKRE 156
           NK DL      HE +E
Sbjct: 121 NKQDLPDAMKPHEIQE 136

>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex Length = 160

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 37/133 (27%), Positives = 62/133 (46%), Gaps = 19/133 (14%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +++++LG    GK+ I+ +   GQ   T+  TVG  F  +T+  ++   VKF +WD  GQ
Sbjct: 1   MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVG--FNVETVTYKN---VKFNVWDVGGQ 54
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK----HGSPDIVMALVGNKA 149
           ++   L   YY G        D    D  ++A+   +EL +        D ++ +  NK 
Sbjct: 55  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEAR---QELHRIINDREMRDAIILIFANKQ 111
Query: 150 DL------HEKRE 156
           DL      HE +E
Sbjct: 112 DLPDAMKPHEIQE 124

>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp Length = 162

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 37/133 (27%), Positives = 62/133 (46%), Gaps = 19/133 (14%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +++++LG    GK+ I+ +   GQ   T+  TVG  F  +T+  ++   VKF +WD  GQ
Sbjct: 1   MRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVG--FNVETVTYKN---VKFNVWDVGGQ 54
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK----HGSPDIVMALVGNKA 149
           ++   L   YY G        D    D  ++A+   +EL +        D ++ +  NK 
Sbjct: 55  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEAR---QELHRIINDREMRDAIILIFANKQ 111
Query: 150 DL------HEKRE 156
           DL      HE +E
Sbjct: 112 DLPDAMKPHEIQE 124

>pdb|3DPU|A Chain A, Roccor Domain Tandem Of Rab Family Protein (Roco) Length = 535

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 52/177 (29%), Positives = 78/177 (44%), Gaps = 31/177 (17%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTI----ALQDSTTVK---FE 86
           +K+ L+GD   GK+ ++ + +   FDP    T G + +++       L++   +K   F 
Sbjct: 42  IKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFH 101
Query: 87  IWDTAGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHG--SPDIVMAL 144
            WD  GQE   A    +           D +  DS NK  YW++ ++K+G  SP IV   
Sbjct: 102 FWDFGGQEIMHASHQFFMTRSSVYMLLLD-SRTDS-NK-HYWLRHIEKYGGKSPVIV--- 155
Query: 145 VGNKADLHEKREVPAQDGIEYAEKNGMF------FIETSAKTADNINQLFEEIAKRL 195
           V NK D     E P+ + IE  + N  F      F   S K  D +    E IAK L
Sbjct: 156 VMNKID-----ENPSYN-IEQKKINERFPAIENRFHRISCKNGDGV----ESIAKSL 202

>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex Length = 162

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 34/121 (28%), Positives = 56/121 (46%), Gaps = 13/121 (10%)
Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           +++ LG    GK+ I+ +   GQ   T+  TVG  F  +T+  ++   VKF +WD  GQ+
Sbjct: 2   RILXLGLDAAGKTTILYKLKLGQ-SVTTIPTVG--FNVETVTYKN---VKFNVWDVGGQD 55
Query: 95  RYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK----HGSPDIVMALVGNKAD 150
           +   L   YY G        D    D  ++A+   +EL +        D ++ +  NK D
Sbjct: 56  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEAR---QELHRIINDREXRDAIILIFANKQD 112
Query: 151 L 151
           L
Sbjct: 113 L 113

>pdb|2A5G|A Chain A, Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length = 175

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 37/136 (27%), Positives = 62/136 (45%), Gaps = 19/136 (13%)
Query: 31  NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           N  +++++LG    GK+ I+ +   GQ   T+  TVG  F  +T+  ++   VKF +WD 
Sbjct: 11  NKEMRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVG--FNVETVTYKN---VKFNVWDV 64
Query: 91  AGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK----HGSPDIVMALVG 146
            G ++   L   YY G        D    D  ++A+   +EL +        D ++ +  
Sbjct: 65  GGLDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEAR---QELHRIINDREMRDAIILIFA 121
Query: 147 NKADL------HEKRE 156
           NK DL      HE +E
Sbjct: 122 NKQDLPDAMKPHEIQE 137

>pdb|2W83|A Chain A, Crystal Structure Of The Arf6 Gtpase In Complex With A Specific Effector, Jip4 Length = 165

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 36/135 (26%), Positives = 62/135 (45%), Gaps = 19/135 (14%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           + +++++LG    GK+ I+ +   GQ   T+  TVG  F  +T+  ++   VKF +WD  
Sbjct: 2   MEMRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVG--FNVETVTYKN---VKFNVWDVG 55
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK----HGSPDIVMALVGN 147
           G ++   L   YY G        D    D  ++A+   +EL +        D ++ +  N
Sbjct: 56  GLDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEAR---QELHRIINDREMRDAIILIFAN 112
Query: 148 KADL------HEKRE 156
           K DL      HE +E
Sbjct: 113 KQDLPDAMKPHEIQE 127

>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like Protein 1) Complex Length = 172

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 36/135 (26%), Positives = 62/135 (45%), Gaps = 19/135 (14%)
Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           + +++++LG    GK+ I+ +   GQ   T+  TVG  F  +T+  ++   VKF +WD  
Sbjct: 1   MEMRILMLGLDAAGKTTILYKLKLGQ-SVTTIPTVG--FNVETVTYKN---VKFNVWDVG 54
Query: 92  GQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQK----HGSPDIVMALVGN 147
           G ++   L   YY G        D    D  ++A+   +EL +        D ++ +  N
Sbjct: 55  GLDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEAR---QELHRIINDREMRDAIILIFAN 111
Query: 148 KADL------HEKRE 156
           K DL      HE +E
Sbjct: 112 KQDLPDAMKPHEIQE 126

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 40/159 (25%), Positives = 66/159 (41%), Gaps = 15/159 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           ++L L+G    GK+  V     GQF+     TVG +    T        V  ++WD  GQ
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKIT-----KGNVTIKLWDIGGQ 77
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPD----SFNKAQYWVKELQKHGSPDIVMALVGNKA 149
            R+ ++   Y RG        D    +    S N+    + + Q  G P +V+   GNK 
Sbjct: 78  PRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVL---GNKR 134
Query: 150 DL---HEKREVPAQDGIEYAEKNGMFFIETSAKTADNIN 185
           DL    +++E+  +  +   +   +     S K  DNI+
Sbjct: 135 DLPGALDEKELIEKMNLSAIQDREICCYSISCKEKDNID 173

>pdb|1MR3|F Chain F, Saccharomyces Cerevisiae Adp-Ribosylation Factor 2 (Scarf2) Complexed With Gdp-3'p At 1.6a Resolution Length = 181

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 38/173 (21%), Positives = 75/173 (43%), Gaps = 10/173 (5%)
Query: 31  NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           N  ++++++G  G GK+ ++ +   G+   T+  T+G  F  +T+  ++   + F +WD 
Sbjct: 15  NKEMRILMVGLDGAGKTTVLYKLKLGEV-ITTIPTIG--FNVETVQYKN---ISFTVWDV 68
Query: 91  AGQERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKA 149
            GQ+R  +L   YYR         D        +A+  ++  L +    + V  +  NK 
Sbjct: 69  GGQDRIRSLWRHYYRNTEGVIFVIDSNDRSRIGEAREVMQRMLNEDELRNAVWLVFANKQ 128
Query: 150 DLHEKR---EVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPS 199
           DL E     E+  + G+        F   T A + + + +  E ++  L   S
Sbjct: 129 DLPEAMSAAEITEKLGLHSIRNRPWFIQSTCATSGEGLYEGLEWLSNNLKNQS 181

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 40/159 (25%), Positives = 66/159 (41%), Gaps = 15/159 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           ++L L+G    GK+  V     GQF+     TVG +    T        V  ++WD  GQ
Sbjct: 32  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKIT-----KGNVTIKLWDIGGQ 86
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPD----SFNKAQYWVKELQKHGSPDIVMALVGNKA 149
            R+ ++   Y RG        D    +    S N+    + + Q  G P +V+   GNK 
Sbjct: 87  PRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVL---GNKR 143
Query: 150 DL---HEKREVPAQDGIEYAEKNGMFFIETSAKTADNIN 185
           DL    +++E+  +  +   +   +     S K  DNI+
Sbjct: 144 DLPGALDEKELIEKMNLSAIQDREICCYSISCKEKDNID 182

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 40/159 (25%), Positives = 65/159 (40%), Gaps = 15/159 (9%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           ++L L+G    GK+  V     GQF      TVG +    T        V  +IWD  GQ
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFSEDMIPTVGFNMRKVT-----KGNVTIKIWDIGGQ 77
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPD----SFNKAQYWVKELQKHGSPDIVMALVGNKA 149
            R+ ++   Y RG        D    +    S N+    + + Q  G P +V+   GNK 
Sbjct: 78  PRFRSMWERYCRGVNAIVYMIDAADREKIEASRNELHNLLDKPQLQGIPVLVL---GNKR 134
Query: 150 DL---HEKREVPAQDGIEYAEKNGMFFIETSAKTADNIN 185
           DL    +++++  +  +   +   +     S K  DNI+
Sbjct: 135 DLPNALDEKQLIEKMNLSAIQDREICCYSISCKEKDNID 173

>pdb|3RD1|A Chain A, Structure Of An Adp Ribosylation Factor From Entamoeba Histolytica Hm- 1:imss Bound To Mg-Gdp Length = 178

Iteration: 1
 Score = 40.0 bits (92), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 37/154 (24%), Positives = 72/154 (46%), Gaps = 17/154 (11%)
Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           ++++++G    GK+ I+ +   G+   T+  T+G  F  +T+  ++   + F +WD  GQ
Sbjct: 18  MRILMVGLDAAGKTSILYKLKLGEI-VTTIPTIG--FNVETVEYKN---ISFTVWDVGGQ 71
Query: 94  ERYAALAPLYYRGXXXXXXXYDITSPDSFNKAQYWVKELQKHGSPD----IVMALVGNKA 149
           ++   L   YY+         D    D   +A+   +EL K  + D     ++ +  NK 
Sbjct: 72  DKIRPLWRHYYQNTQAIIFVVDSNDRDRIGEAR---EELMKMLNEDEMRNAILLVFANKH 128
Query: 150 DLHEKR---EVPAQDGIEYAEKNGMFFIETSAKT 180
           DL +     EV  + G++   KN  ++ +TS  T
Sbjct: 129 DLPQAMSISEVTEKLGLQTI-KNRKWYCQTSCAT 161

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	202
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	1e-105
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	1e-104
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	1e-102
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	1e-102
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	1e-101
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	1e-100
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	2e-99
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	5e-94
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	4e-92
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	1e-89
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	2e-89
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	2e-88
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	9e-88
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	2e-87
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	4e-86
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	6e-86
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	1e-85
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	1e-84
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	2e-84
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	8e-84
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	1e-83
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	2e-83
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	2e-82
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	3e-82
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	1e-81
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	1e-81
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	2e-81
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	4e-81
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	4e-81
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	5e-81
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	6e-80
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	1e-79
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	2e-79
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	2e-79
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	3e-79
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	5e-79
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	7e-79
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	1e-78
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	4e-78
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	5e-78
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	9e-78
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	1e-77
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	4e-76
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	1e-75
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	2e-72
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	9e-72
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	5e-71
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	3e-70
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	2e-69
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	7e-69
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	9e-69
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	3e-68
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	1e-67
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	7e-67
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	2e-66
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	3e-66
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	7e-66
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	4e-65
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	1e-64
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	4e-64
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	6e-64
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	1e-63
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	3e-62
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	4e-62
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	6e-62
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	6e-62
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	1e-61
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	3e-61
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	7e-57
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	6e-55
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	3e-48
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	3e-46
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	6e-46
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	6e-45
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	7e-45
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	1e-44
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	6e-44
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	3e-43
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	1e-41
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	1e-41
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	1e-41
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	2e-41
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	4e-41
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	2e-29
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	4e-26
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	4e-21
3llu_A	196	RAS-related GTP-binding protein C; structural geno	8e-19
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	7e-18
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	2e-11
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	3e-11
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	4e-11
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	7e-11
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	8e-11
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	1e-10
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	2e-10
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	4e-10
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	6e-10
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	1e-09
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	3e-09
2fh5_B	214	SR-beta, signal recognition particle receptor beta	3e-09
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	1e-08
2ged_A	193	SR-beta, signal recognition particle receptor beta	4e-08
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	1e-07
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	1e-06
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	1e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-05
1nrj_B	218	SR-beta, signal recognition particle receptor beta	2e-06
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	3e-06
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	1e-05
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	1e-05
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	1e-05
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	1e-05
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	3e-05
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	5e-05
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	8e-05
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	1e-04
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	3e-04
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	3e-04
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	4e-04
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	5e-04

>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 =  298 bits (766), Expect = e-105
 Identities = 97/202 (48%), Positives = 127/202 (62%), Gaps = 11/202 (5%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MG S      SSG               +    +K+ LLGD+GVGKS IV RFV+  FD 
Sbjct: 1   MGSSHHHHHHSSGLV----------PRGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDH 50

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
               T+GASF+++T+   +    KF IWDTAGQER+ +LAP+YYRG+A AV+VYDIT  D
Sbjct: 51  NISPTIGASFMTKTVPCGN-ELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQD 109

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           SF   + WVKEL++HG  +IVMA+ GNK DL + REVP +D  EYAE  G   +ETSAK 
Sbjct: 110 SFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKN 169

Query: 181 ADNINQLFEEIAKRLPRPSPSS 202
           A NI +LF+ I++++P   P  
Sbjct: 170 AINIEELFQGISRQIPPLDPHE 191

>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 =  297 bits (763), Expect = e-104
 Identities = 102/179 (56%), Positives = 139/179 (77%), Gaps = 1/179 (0%)

Query: 24  AGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTV 83
             ++  K++  KLVLLGD G GKS +VLRFV+ QF    + T+GA+F SQT+A+ D  TV
Sbjct: 3   MAAAGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVND-ATV 61

Query: 84  KFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMA 143
           KFEIWDTAGQERY +LAP+YYRGAA A++V+D+T+  SF +A+ WV+ELQ  G+P++VMA
Sbjct: 62  KFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMA 121

Query: 144 LVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
           L GNK+DL + R+V A+D   YA++NG+FF+ETSAKTA N+ ++F EIA+RLPR  P+ 
Sbjct: 122 LAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPTE 180

>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 =  292 bits (749), Expect = e-102
 Identities = 87/169 (51%), Positives = 121/169 (71%), Gaps = 1/169 (0%)

Query: 29  AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIW 88
           +    +K+ LLGD+GVGKS I+ RFV   FDP    T+GASF+++T+  Q+    KF IW
Sbjct: 2   SALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQN-ELHKFLIW 60

Query: 89  DTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNK 148
           DTAG ER+ ALAP+YYRG+A A++VYDIT  ++F+  + WV+EL++HG P IV+A+ GNK
Sbjct: 61  DTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNK 120

Query: 149 ADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
            DL + REV  +D  +YA+     F+ETSAK A NIN+LF EI++R+P 
Sbjct: 121 CDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIPS 169

>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 =  290 bits (746), Expect = e-102
 Identities = 103/168 (61%), Positives = 132/168 (78%), Gaps = 1/168 (0%)

Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K  + KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TTVKFEIWD
Sbjct: 3   KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCL-DDTTVKFEIWD 61

Query: 90  TAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKA 149
           TAGQERY +LAP+YYRGA  A+VVYDIT+ +SF +A+ WVKELQ+  SP+IV+AL GNKA
Sbjct: 62  TAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKA 121

Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           DL  KR V  Q+   YA+ N + F+ETSAKT+ N+N++F  IAK+LP+
Sbjct: 122 DLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>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 =  288 bits (740), Expect = e-101
 Identities = 75/173 (43%), Positives = 113/173 (65%), Gaps = 1/173 (0%)

Query: 24  AGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTV 83
           +G       + KLV LG+  VGK+ ++ RF+   FD T + T+G  FLS+T+ L+D  TV
Sbjct: 5   SGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLED-RTV 63

Query: 84  KFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMA 143
           + ++WDTAGQER+ +L P Y R + VAVVVYDIT+ +SF++   W+ +++     D+++ 
Sbjct: 64  RLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIM 123

Query: 144 LVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           LVGNK DL +KR+V  ++G   A++  + FIETSAK   N+ QLF  +A  LP
Sbjct: 124 LVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP 176

>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 =  287 bits (736), Expect = e-100
 Identities = 74/180 (41%), Positives = 111/180 (61%), Gaps = 1/180 (0%)

Query: 23  NAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTT 82
             G       + KLV LG+  VGK+ ++ RF+   FD T + T+G  FLS+T+ L+D  T
Sbjct: 6   TGGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLED-RT 64

Query: 83  VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVM 142
           V+ ++WDTAG ER+ +L P Y R + VAVVVYDIT+ +SF +   W+ +++     D+++
Sbjct: 65  VRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVII 124

Query: 143 ALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
            LVGNK DL +KR+V  ++G   A++  + FIETSAK   N+ QLF  +A  LP    + 
Sbjct: 125 MLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQ 184

>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 =  284 bits (728), Expect = 2e-99
 Identities = 73/162 (45%), Positives = 102/162 (62%), Gaps = 1/162 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VLLG+  VGK+ +VLR+   +F+     T+GASFL++ + +     V   IWDTAGQE
Sbjct: 8   KVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNI-GGKRVNLAIWDTAGQE 66

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ AL P+YYR +  A++VYDIT  DSF K + WVKEL+K    +I + +VGNK DL ++
Sbjct: 67  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE 126

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           R V  Q+   YAE  G     TSAK    I +LF ++ KR+ 
Sbjct: 127 RHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI 168

>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 =  270 bits (694), Expect = 5e-94
 Identities = 52/166 (31%), Positives = 83/166 (50%), Gaps = 3/166 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+V+LGD   GK+ +   F +  F    K T+G  F  + I L  +  V  +IWD  GQ 
Sbjct: 8   KIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQT 67

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYW---VKELQKHGSPDIVMALVGNKADL 151
               +   Y  GA   ++VYDIT+  SF   + W   VK++ +      ++ALVGNK DL
Sbjct: 68  IGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDL 127

Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
              R +  +  + + ++NG      SAKT D++   F+++A  +  
Sbjct: 128 EHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILG 173

>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 =  266 bits (683), Expect = 4e-92
 Identities = 79/195 (40%), Positives = 115/195 (58%), Gaps = 9/195 (4%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MG S      SSG             S+  N   K+VL+G+SGVGK+ ++ RF R +F  
Sbjct: 1   MGSSHHHHHHSSGLVPR--------GSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSH 52

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
            S+ T+G  F ++T+ L  +  VK +IWDTAG ERY A+   YYRGA  A++V+D+T   
Sbjct: 53  DSRTTIGVEFSTRTVML-GTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQ 111

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           ++   + W+KEL  H    IV+ LVGNK+DL + REVP ++   +AE NG+ F+ETSA  
Sbjct: 112 TYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALD 171

Query: 181 ADNINQLFEEIAKRL 195
           + N+   FE + K +
Sbjct: 172 STNVELAFETVLKEI 186

>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 =  260 bits (666), Expect = 1e-89
 Identities = 75/161 (46%), Positives = 106/161 (65%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VL+GDSGVGKS ++ RF R +F+  SK T+G  F +++I + D  T+K +IWDTAG E
Sbjct: 31  KVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAGLE 89

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY A+   YYRGA  A++VYDI    ++   + W+KEL+ H   +IV+ LVGNK+DL   
Sbjct: 90  RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 149

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R VP  +   +AEKNG+ FIETSA  + N+   F+ I   +
Sbjct: 150 RAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 190

>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 =  260 bits (667), Expect = 2e-89
 Identities = 56/173 (32%), Positives = 89/173 (51%)

Query: 25  GSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVK 84
           GS + + L  K+ L+GD GVGK+  + R + G+F+     TVGA     T        +K
Sbjct: 3   GSMERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIK 62

Query: 85  FEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMAL 144
           F +WDTAGQE+ A L  +YY GA+ A++ +D+TS  +      WVKE Q     +  + +
Sbjct: 63  FNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVV 122

Query: 145 VGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
             NK D+  ++++  +  +E  +     + E SAKTA N    F  +A+    
Sbjct: 123 CANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTG 175

>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 =  257 bits (659), Expect = 2e-88
 Identities = 79/197 (40%), Positives = 120/197 (60%), Gaps = 8/197 (4%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MG S      SSG       L   GS +  +   K+VL+G++GVGK+C+V RF +G F P
Sbjct: 1   MGSSHHHHHHSSG-------LVPRGSMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPP 53

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
               T+G  F+ +T+ + +   VK +IWDTAGQER+ ++   YYR A   ++ YDIT  +
Sbjct: 54  GQGATIGVDFMIKTVEI-NGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEE 112

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           SF     W++E++++ S  ++  LVGNK DL E+REV  Q   E++E   M+++ETSAK 
Sbjct: 113 SFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKE 172

Query: 181 ADNINQLFEEIAKRLPR 197
           +DN+ +LF ++A RL  
Sbjct: 173 SDNVEKLFLDLACRLIS 189

>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 =  255 bits (654), Expect = 9e-88
 Identities = 75/163 (46%), Positives = 107/163 (65%), Gaps = 1/163 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VL+GDSGVGKS ++ RF R +F+  SK T+G  F +++I + D  T+K +IWDTAGQE
Sbjct: 7   KVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAGQE 65

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY  +   YYRGA  A++VYDI    ++   + W+KEL+ H   +IV+ LVGNK+DL   
Sbjct: 66  RYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 125

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           R VP  +   +AEKN + FIETSA  + N+ + F+ I   + R
Sbjct: 126 RAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYR 168

>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 =  254 bits (651), Expect = 2e-87
 Identities = 70/183 (38%), Positives = 120/183 (65%), Gaps = 1/183 (0%)

Query: 15  SGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQT 74
           S   ++  ++G     +   K +++GD+GVGKSC++L+F   +F P   +T+G  F ++ 
Sbjct: 3   SSHHHHHHSSGLVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARM 62

Query: 75  IALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK 134
           + + D   +K +IWDTAGQE + ++   YYRGAA A++VYDIT  ++FN    W+++ ++
Sbjct: 63  VNI-DGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQ 121

Query: 135 HGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKR 194
           H S ++V+ L+GNK+DL  +R+V  ++G  +A ++G+ F+ETSAKTA N+ + F   AK 
Sbjct: 122 HSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKE 181

Query: 195 LPR 197
           + R
Sbjct: 182 IYR 184

>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 =  250 bits (642), Expect = 4e-86
 Identities = 68/178 (38%), Positives = 111/178 (62%), Gaps = 1/178 (0%)

Query: 20  NLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQD 79
            L +A +    +   K +++GD GVGKSC++ +F   +F      T+G  F ++ I +  
Sbjct: 2   PLGSATAPYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-S 60

Query: 80  STTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPD 139
              +K +IWDTAGQER+ A+   YYRGAA A++VYDIT   ++N    W+ + +   +P+
Sbjct: 61  GQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPN 120

Query: 140 IVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
            V+ L+GNKADL  +R+V  ++  ++AE+NG+ F+E SAKT +N+   F E AK++ +
Sbjct: 121 TVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ 178

>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 =  250 bits (640), Expect = 6e-86
 Identities = 54/161 (33%), Positives = 90/161 (55%), Gaps = 2/161 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+V++G+  VGKS ++ R+ +G F    K T+G  FL + I + D   V+  +WDTAGQE
Sbjct: 7   KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVND-EDVRLMLWDTAGQE 65

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
            + A+   YYRGA   V+V+  T  +SF     W +++      DI  ALV NK DL + 
Sbjct: 66  EFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAE-VGDIPTALVQNKIDLLDD 124

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
             +  ++    A++  + F  TS K   N++++F+ +A++ 
Sbjct: 125 SCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKH 165

>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 =  251 bits (643), Expect = 1e-85
 Identities = 66/163 (40%), Positives = 110/163 (67%), Gaps = 1/163 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VL+GDSGVGKS ++ RF + +F+  SK T+G  F ++T+ + +   +K +IWDTAGQE
Sbjct: 15  KIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEI-EGKRIKAQIWDTAGQE 73

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY A+   YYRGA  A++VYDI+   S+    +W+ EL+++   ++ + L+GNK+DL   
Sbjct: 74  RYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHL 133

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           R VP ++   +A++N + F ETSA  ++N+++ FEE+   + +
Sbjct: 134 RAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQ 176

>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 =  247 bits (634), Expect = 1e-84
 Identities = 72/195 (36%), Positives = 113/195 (57%), Gaps = 9/195 (4%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MG S      SSG             S   +   K +++G +G GKSC++ +F+  +F  
Sbjct: 1   MGSSHHHHHHSSGLV--------PRGSIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQ 52

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
            S  T+G  F S+ + +    TVK +IWDTAGQER+ ++   YYRGAA A++VYDITS +
Sbjct: 53  DSNHTIGVEFGSRVVNV-GGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRE 111

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           ++N    W+ + +   SP+IV+ L GNK DL  +REV   +   +A++N + F+ETSA T
Sbjct: 112 TYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALT 171

Query: 181 ADNINQLFEEIAKRL 195
            +N+ + F + A+ +
Sbjct: 172 GENVEEAFLKCARTI 186

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  247 bits (634), Expect = 2e-84
 Identities = 48/192 (25%), Positives = 85/192 (44%), Gaps = 10/192 (5%)

Query: 15  SGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVR--GQFDPTSKVTVGASFLS 72
           +  +   E         LR K+ ++G++ VGKS ++  F     +F     +T G   + 
Sbjct: 2   AASMVKKEVKPIDITATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVV 61

Query: 73  QTIALQDSTTVKFEIW--DTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVK 130
             + +   TTV  E++  DTAG + Y      Y+ G   A++V+D++S +SF   + W +
Sbjct: 62  APVTI-PDTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFE 120

Query: 131 ELQK---HGSPDIVMALVGNKADL-HEKREVPAQDGIEYAEKNGMFFIETSAK-TADNIN 185
            L+         +   LV NK DL  ++ +V      ++A  N + F + SA     + +
Sbjct: 121 LLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDAD 180

Query: 186 QLFEEIAKRLPR 197
             F  IA    R
Sbjct: 181 APFLSIATTFYR 192

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  246 bits (629), Expect = 8e-84
 Identities = 72/199 (36%), Positives = 107/199 (53%), Gaps = 39/199 (19%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDST------------- 81
           K VLLG+S VGKS IVLR  +  F   +  T+GASF +  + L D               
Sbjct: 9   KTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNI 68

Query: 82  -----------------------TVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITS 118
                                   +KF+IWDTAGQERYA++ PLYYRGA  A+VV+DI++
Sbjct: 69  NSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISN 128

Query: 119 PDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSA 178
            ++ ++A+ WV +L+     + ++ LV NK D   K +V   +  +YA+ N + FI+TSA
Sbjct: 129 SNTLDRAKTWVNQLKIS--SNYIIILVANKIDK-NKFQVDILEVQKYAQDNNLLFIQTSA 185

Query: 179 KTADNINQLFEEIAKRLPR 197
           KT  NI  +F  +A+ + +
Sbjct: 186 KTGTNIKNIFYMLAEEIYK 204

>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 =  245 bits (628), Expect = 1e-83
 Identities = 78/195 (40%), Positives = 114/195 (58%), Gaps = 1/195 (0%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MG S      SSG++        +  +   +   KL+L+GDSGVGKSC++LRF    +  
Sbjct: 1   MGSSHHHHHHSSGENLYFQGRPMSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTE 60

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
           +   T+G  F  +TI L D  T+K +IWDTAGQER+  +   YYRGA   +VVYD+T  +
Sbjct: 61  SYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQE 119

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT 180
           SFN  + W++E+ ++ S ++   LVGNK DL  K+ V      E+A+  G+ F+ETSAK 
Sbjct: 120 SFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKN 179

Query: 181 ADNINQLFEEIAKRL 195
           A N+ Q F  +A  +
Sbjct: 180 ATNVEQSFMTMAAEI 194

>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 =  244 bits (625), Expect = 2e-83
 Identities = 64/161 (39%), Positives = 104/161 (64%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K +++G++G GKSC++ +F+  +F   S  T+G  F S+ I +     VK +IWDTAGQE
Sbjct: 12  KFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV-GGKYVKLQIWDTAGQE 70

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ ++   YYRGAA A++VYDITS +++N    W+ + +   S +IV+ L GNK DL   
Sbjct: 71  RFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDAD 130

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           REV   +   +A++N + F+ETSA T +N+ + F + A+++
Sbjct: 131 REVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKI 171

>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 =  242 bits (619), Expect = 2e-82
 Identities = 62/175 (35%), Positives = 101/175 (57%), Gaps = 5/175 (2%)

Query: 27  SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFE 86
           +  K + +K+++LGDSGVGK+ ++ ++V  +F    K T+GA FL++ + + D   V  +
Sbjct: 2   TSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMV-DDRLVTMQ 60

Query: 87  IWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSP----DIVM 142
           IWDTAGQER+ +L   +YRGA   V+V+D+T+P++F     W  E     SP    +   
Sbjct: 61  IWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPF 120

Query: 143 ALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
            ++GNK DL  ++    +       KN + + ETSAK A N+ Q F+ IA+   +
Sbjct: 121 VVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALK 175

>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 =  242 bits (619), Expect = 3e-82
 Identities = 73/196 (37%), Positives = 105/196 (53%), Gaps = 6/196 (3%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MG S      SSG         +    +  +   KLVL+GD+ VGK+C+V RF  G F  
Sbjct: 1   MGSSHHHHHHSSGLVPR----GSGDPDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSE 56

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
               T+G  F  +T+ +     VK +IWDTAGQER+  +   YYR A  A++ YDIT   
Sbjct: 57  RQGSTIGVDFTMKTLEI-QGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRS 115

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNG-MFFIETSAK 179
           SF    +W+++++K+   +IV  L+GNK+DL E REV   +    AE    +  IETSAK
Sbjct: 116 SFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAK 175

Query: 180 TADNINQLFEEIAKRL 195
            + N+ + F  +A  L
Sbjct: 176 DSSNVEEAFLRVATEL 191

>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 =  239 bits (611), Expect = 1e-81
 Identities = 89/166 (53%), Positives = 121/166 (72%), Gaps = 4/166 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLVLLG++ VGKS IVLRFV   F    + T+GA+FL+Q + + +  TVKFEIWDTAGQE
Sbjct: 5   KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINE-HTVKFEIWDTAGQE 63

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE- 153
           R+A+LAP YYR A  A+VVYD+T P SF KA++WVKEL +  S DI++ALVGNK D  + 
Sbjct: 64  RFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQE 123

Query: 154 --KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
             +R+V  ++G + AE+ G+ F ETSAKT +N+N +F  I +++P 
Sbjct: 124 GGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPL 169

>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 =  240 bits (614), Expect = 1e-81
 Identities = 67/161 (41%), Positives = 103/161 (63%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+G+SGVGKSC++LRF    +      T+G  F  +T+ L D  TVK +IWDTAGQE
Sbjct: 10  KLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVEL-DGKTVKLQIWDTAGQE 68

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG+   ++VYD+T  +SFN  + W++E+ ++ +  ++  LVGNK DL +K
Sbjct: 69  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK 128

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R V      E+A+ N M F+ETSA  + N+   F  +A+++
Sbjct: 129 RVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQI 169

>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 =  239 bits (612), Expect = 2e-81
 Identities = 62/177 (35%), Positives = 97/177 (54%), Gaps = 6/177 (3%)

Query: 27  SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFE 86
           S  K   +K+++LGDSGVGK+ ++ R+V  ++    K T+GA FL++ + +        +
Sbjct: 2   SSRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQ 61

Query: 87  IWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSP----DIVM 142
           +WDTAGQER+ +L   +YRGA   V+VYD+T+  SF   + W  E   H +         
Sbjct: 62  VWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPF 121

Query: 143 ALVGNKADL-HEKREVPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEEIAKRLPR 197
            ++GNK D    K+ V  +   E A+  G +    TSAK A N++  FEEIA+   +
Sbjct: 122 VILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQ 178

>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 =  239 bits (611), Expect = 4e-81
 Identities = 75/162 (46%), Positives = 105/162 (64%), Gaps = 3/162 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G+SGVGKS ++LRF    FDP    T+G  F  +TI++ D    K  IWDTAGQE
Sbjct: 17  KILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISV-DGNKAKLAIWDTAGQE 75

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSP-DIVMALVGNKADLHE 153
           R+  L P YYRGA   ++VYD+T  D+F K   W+ EL+ + +  DIV  LVGNK D  E
Sbjct: 76  RFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDK-E 134

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            REV   +G+++A K+ M FIE SAKT D +   FEE+ +++
Sbjct: 135 NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKI 176

>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 =  239 bits (611), Expect = 4e-81
 Identities = 63/203 (31%), Positives = 99/203 (48%), Gaps = 12/203 (5%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MG S      SSG          +  S +     K+VL GD+ VGKS  ++R  + +F  
Sbjct: 1   MGSSHHHHHHSSGLV-----PRGSAKSFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRE 55

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
               T+G  F  +T+ + D      ++WDTAGQER+ ++A  Y+R A   +++YD+T   
Sbjct: 56  NISATLGVDFQMKTLIV-DGERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEK 114

Query: 121 SFNKAQYWVKELQKHGSPDIVMALVGNKADLH------EKREVPAQDGIEYAEKNGMFFI 174
           SF   + WV  ++      + + LVGNKAD+        ++ VP   G + A   G  F 
Sbjct: 115 SFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFC 174

Query: 175 ETSAKTADNINQLFEEIAKRLPR 197
           ETSAK   NI +    +A+ + +
Sbjct: 175 ETSAKDGSNIVEAVLHLAREVKK 197

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  238 bits (610), Expect = 5e-81
 Identities = 72/161 (44%), Positives = 103/161 (63%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGKSC++LRF    +  +   T+G  F  +TI L D  T+K +IWDTAGQE
Sbjct: 18  KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQE 76

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRGA   +VVYD+T  +SFN  + W++E+ ++ S ++   LVGNK DL  K
Sbjct: 77  RFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTK 136

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           + V      E+A+  G+ F+ETSAK A N+ Q F  +A  +
Sbjct: 137 KVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 177

>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 =  236 bits (605), Expect = 6e-80
 Identities = 49/163 (30%), Positives = 85/163 (52%), Gaps = 4/163 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLVL+GD G GK+  V R + G+F+     T+G           +   +KF +WDTAGQE
Sbjct: 17  KLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHT-NRGPIKFNVWDTAGQE 75

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           ++  L   YY  A  A++++D+TS  ++     W ++L +    +I + L GNK D+ ++
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV-CENIPIVLCGNKVDIKDR 134

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           +       I +  K  + + + SAK+  N  + F  +A++L  
Sbjct: 135 KVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIG 175

>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 =  234 bits (599), Expect = 1e-79
 Identities = 67/161 (41%), Positives = 104/161 (64%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGK+C++ RF    F+ T   T+G  F  +TI L D   +K +IWDTAGQE
Sbjct: 10  KLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIEL-DGKRIKLQIWDTAGQE 68

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRGA   ++VYDIT+  SF+  + W++ +++H S D+   ++GNK D+++K
Sbjct: 69  RFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDK 128

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R+V  + G + A   G+ F+ETSAK   N+   F  +A+ +
Sbjct: 129 RQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDI 169

>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 =  234 bits (599), Expect = 2e-79
 Identities = 63/161 (39%), Positives = 93/161 (57%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+G+S VGK+  + R+    F P    TVG  F  +T+       +K +IWDTAGQE
Sbjct: 24  KLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYR-HDKRIKLQIWDTAGQE 82

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY  +   YYRGA   +++YDI + +SF   Q W  +++ +   +  + LVGNK DL ++
Sbjct: 83  RYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDE 142

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R VPA+DG   A+  G  F E SAK   N+ Q+FE +   +
Sbjct: 143 RVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVI 183

>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 =  234 bits (599), Expect = 2e-79
 Identities = 60/178 (33%), Positives = 100/178 (56%), Gaps = 6/178 (3%)

Query: 23  NAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTT 82
           +     +++   K++++GDS VGK+C+  RF  G+F   ++ T+G  F  + + + D   
Sbjct: 10  SLVPRGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDI-DGER 68

Query: 83  VKFEIWDTAGQERY-AALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSP-DI 140
           +K ++WDTAGQER+  ++   YYR     V VYD+T+  SF+    W++E ++H    DI
Sbjct: 69  IKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDI 128

Query: 141 VMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTA---DNINQLFEEIAKRL 195
              LVGNK DL    +VP     ++A+ + M   ETSAK     D++  +F  +A +L
Sbjct: 129 PRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKL 186

>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 =  234 bits (598), Expect = 3e-79
 Identities = 63/161 (39%), Positives = 93/161 (57%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+++G+S VGK+  + R+    F P    TVG  F  +T+       VK +IWDTAGQE
Sbjct: 25  KLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYR-HEKRVKLQIWDTAGQE 83

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY  +   YYRGA   +++YDIT+ +SFN  Q W  +++ +   +  + LVGNK D+ E+
Sbjct: 84  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEE 143

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R VP + G   AE+ G  F E SAK   ++ Q FE +   +
Sbjct: 144 RVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAI 184

>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 =  232 bits (594), Expect = 5e-79
 Identities = 70/161 (43%), Positives = 107/161 (66%), Gaps = 2/161 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++L+GDSGVGKSC+++RFV  +F+P+   T+G  F  +T+ + +   VK +IWDTAGQE
Sbjct: 5   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQIWDTAGQE 63

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRGA   ++VYDIT   +F   + W K + +H + +  + LVGNK+D+ E 
Sbjct: 64  RFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ET 122

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R V A  G   A++ G+ FIE+SAK  DN+N++F  +AK +
Sbjct: 123 RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLI 163

>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 =  233 bits (596), Expect = 7e-79
 Identities = 59/161 (36%), Positives = 93/161 (57%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G+S VGK+  + R+    F P    TVG  F  +TI   +   +K +IWDTAG E
Sbjct: 10  KILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYR-NDKRIKLQIWDTAGLE 68

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY  +   YYRGA   +++YDIT+ +SFN  Q W  +++ +   +  + LVGNK D+ ++
Sbjct: 69  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDE 128

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R V ++ G + A+  G  F E SAK   N+ Q FE +   +
Sbjct: 129 RVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVI 169

>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 =  232 bits (594), Expect = 1e-78
 Identities = 66/192 (34%), Positives = 106/192 (55%), Gaps = 6/192 (3%)

Query: 5   GSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV 64
           GS        SG    L   GS    + +++++++G  GVGK+ ++ RF    F    K 
Sbjct: 2   GSSHHHHHHSSG----LVPRGSPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKS 57

Query: 65  TVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNK 124
           TVG  F  +T+ L     ++ +IWDTAGQER+ ++   YYR A   ++VYDIT  ++F+ 
Sbjct: 58  TVGVDFKIKTVEL-RGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDD 116

Query: 125 AQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK-NGMFFIETSAKTADN 183
              W+K + K+ S D  + LVGNK D    RE+  Q G ++A++  GM F E SAK   N
Sbjct: 117 LPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFN 176

Query: 184 INQLFEEIAKRL 195
           ++++F ++   +
Sbjct: 177 VDEIFLKLVDDI 188

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  230 bits (590), Expect = 4e-78
 Identities = 63/161 (39%), Positives = 98/161 (60%), Gaps = 2/161 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+++GDSGVGKS ++LRF    F  +   T+G  F  +T+ + +   VK +IWDTAGQE
Sbjct: 11  KLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEI-NGEKVKLQIWDTAGQE 69

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG    +VVYD+TS +SF   + W+ E+ ++   D+   LVGNK D  E+
Sbjct: 70  RFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQN-CDDVCRILVGNKNDDPER 128

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           + V  +D  ++A + G+   ETSAK   N+ ++F  I + +
Sbjct: 129 KVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELV 169

>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 =  230 bits (588), Expect = 5e-78
 Identities = 57/166 (34%), Positives = 90/166 (54%), Gaps = 7/166 (4%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++LLGD GVGKS ++ R+V  +FD     T+G  FL++ + + D   V  +IWDTAGQE
Sbjct: 9   KVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEV-DGHFVTMQIWDTAGQE 67

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSP----DIVMALVGNKAD 150
           R+ +L   +YRG+   ++ + +    SF     W KE   +            ++GNK D
Sbjct: 68  RFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKID 127

Query: 151 LHEKREVPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEEIAKRL 195
           +  +R+V  ++   +   NG   + ETSAK A N+   FEE  +R+
Sbjct: 128 I-SERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 172

>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 =  231 bits (590), Expect = 9e-78
 Identities = 68/161 (42%), Positives = 107/161 (66%), Gaps = 2/161 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++L+GDSGVGKSC+++RFV  +F+P+   T+G  F  +T+ + +   VK ++WDTAGQE
Sbjct: 22  KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDI-NGKKVKLQLWDTAGQE 80

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRGA   ++VYD+T   +F   + W K + +H + +  + LVGNK+D+ E 
Sbjct: 81  RFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ET 139

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R V A  G   A++ G+ FIE+SAK  DN+N++F  +AK +
Sbjct: 140 RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLI 180

>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 =  229 bits (586), Expect = 1e-77
 Identities = 67/173 (38%), Positives = 108/173 (62%), Gaps = 2/173 (1%)

Query: 24  AGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS-KVTVGASFLSQTIALQDSTT 82
               D  ++  K++L+GDSGVGK+C+++RF  G F   +   TVG  F ++ + + D   
Sbjct: 1   GSGVDFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDV-DGVK 59

Query: 83  VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVM 142
           VK ++WDTAGQER+ ++   YYR A   +++YD+T+  SF+  Q W+ E+ ++   D+ +
Sbjct: 60  VKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVAL 119

Query: 143 ALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            L+GNK D   +R V  +DG + A++ G+ F+ETSAKT  N++  F  IAK L
Sbjct: 120 MLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKEL 172

>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 =  226 bits (579), Expect = 4e-76
 Identities = 65/205 (31%), Positives = 104/205 (50%), Gaps = 18/205 (8%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MG S      SSG             S   +  +KL+ LGDSGVGK+  + R+   +F+P
Sbjct: 1   MGSSHHHHHHSSGLV--------PRGSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNP 52

Query: 61  TSKVTVGASFLSQTIALQD---------STTVKFEIWDTAGQERYAALAPLYYRGAAVAV 111
               TVG  F  + +             +  V  ++WDTAGQER+ +L   ++R A   +
Sbjct: 53  KFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFL 112

Query: 112 VVYDITSPDSFNKAQYWVKELQKHGSP-DIVMALVGNKADLHEKREVPAQDGIEYAEKNG 170
           +++D+TS  SF   + W+ +LQ +    +  + L+GNKADL ++REV  +   E A+K G
Sbjct: 113 LMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYG 172

Query: 171 MFFIETSAKTADNINQLFEEIAKRL 195
           + + ETSA T  N+ +  E +   +
Sbjct: 173 IPYFETSAATGQNVEKAVETLLDLI 197

>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 =  224 bits (574), Expect = 1e-75
 Identities = 54/171 (31%), Positives = 94/171 (54%), Gaps = 10/171 (5%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDST---------TVKF 85
           K + LGDSGVGK+ ++ ++  G+F+     TVG  F  + +  + +           +  
Sbjct: 13  KFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHL 72

Query: 86  EIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHG-SPDIVMAL 144
           ++WDTAG ER+ +L   ++R A   ++++D+T+  SF   + W+ +LQ H  S +  + L
Sbjct: 73  QLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVL 132

Query: 145 VGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            GNK+DL ++R V  ++  E AEK G+ + ETSA    NI+   E +   +
Sbjct: 133 CGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLI 183

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  217 bits (554), Expect = 2e-72
 Identities = 61/195 (31%), Positives = 95/195 (48%), Gaps = 5/195 (2%)

Query: 9   ARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGA 68
                 S G  NL   G    +    K+V+LG   VGK+ +  +FV G+F      TV  
Sbjct: 2   HHHHHHSSGRENLYFQGMPLVRY--RKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVEN 59

Query: 69  SFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYW 128
           ++ S+ + L         + DTAGQ+ Y+ L   +  G    V+VY +TS  SF   +  
Sbjct: 60  TY-SKIVTL-GKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESL 117

Query: 129 VKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQL 187
            ++L + HG   + + LVGNKADL  +REV A +G + AE  G  F+E+SA+       +
Sbjct: 118 YQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGI 177

Query: 188 FEEIAKRLPRPSPSS 202
           F ++ + + R   S 
Sbjct: 178 FTKVIQEIARVENSY 192

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B* Length = 184

 Score =  214 bits (548), Expect = 9e-72
 Identities = 36/176 (20%), Positives = 81/176 (46%), Gaps = 14/176 (7%)

Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPT--SKVTVGASFLSQTIALQDST--TVKFEIW 88
           R+KL+++G++G GK+ ++ + ++ +         TVG       I ++D     +   +W
Sbjct: 2   RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVW 61

Query: 89  DTAGQERYAALAPLYYRGAAVAVVVYDITSPDS-FNKAQYWVKELQKHGSPDIVMALVGN 147
           D AG+E + +  P +    A+ + VYD++   +  +  + W+  ++   S   V+ LVG 
Sbjct: 62  DFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSPVI-LVGT 120

Query: 148 KADLHEKRE---VPAQDGIEYAEKNGMFFI-----ETSAKTADNINQLFEEIAKRL 195
             D+ ++++     ++   E   K G   I       + + +D + +L + I    
Sbjct: 121 HLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINES 176

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  223 bits (570), Expect = 5e-71
 Identities = 35/190 (18%), Positives = 74/190 (38%), Gaps = 11/190 (5%)

Query: 18  LNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIAL 77
           +    + G +      +K+ L+GD   GK+ ++ + +   FDP    T G + +++    
Sbjct: 26  IEEARSKGEALVHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPN 85

Query: 78  Q-------DSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVK 130
                   +     F  WD  GQE   A    +   ++V +++ D  +    +   YW++
Sbjct: 86  IKGLENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSRT---DSNKHYWLR 142

Query: 131 ELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE 190
            ++K+G     + +V NK D +    +  +   E        F   S K  D +  + + 
Sbjct: 143 HIEKYG-GKSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKS 201

Query: 191 IAKRLPRPSP 200
           +   +  P  
Sbjct: 202 LKSAVLHPDS 211

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  210 bits (536), Expect = 3e-70
 Identities = 45/161 (27%), Positives = 71/161 (44%), Gaps = 3/161 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++L+G+SGVGKS +   F   Q D   ++        + I + D   V   ++D   Q 
Sbjct: 4   KVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMV-DKEEVTLIVYDIWEQG 62

Query: 95  RYAALAP-LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLH 152
                      +     ++V+ +T   SF+K    +  L+      D+ + LVGNK+DL 
Sbjct: 63  DAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLA 122

Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
             REV  ++G   A       IETSA    N  +LFE   +
Sbjct: 123 RSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVR 163

>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 =  208 bits (533), Expect = 2e-69
 Identities = 48/174 (27%), Positives = 73/174 (41%), Gaps = 3/174 (1%)

Query: 22  ENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDST 81
           EN      K+   K++L+G+SGVGKS +   F   Q D   +         + I + D  
Sbjct: 12  ENLYFQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMV-DKE 70

Query: 82  TVKFEIWDTAGQERYAALAP-LYYRGAAVAVVVYDITSPDSFNKAQYWVKEL-QKHGSPD 139
            V   ++D   Q            +     ++V+ +T   SF+K    +  L       D
Sbjct: 71  EVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHD 130

Query: 140 IVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
           + + LVGNK+DL   REV  ++G   A       IETSA    N  +LFE   +
Sbjct: 131 LPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVR 184

>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 =  207 bits (529), Expect = 7e-69
 Identities = 50/175 (28%), Positives = 83/175 (47%), Gaps = 3/175 (1%)

Query: 29  AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIW 88
            ++   K+ +LG   VGKS + ++FV GQF  +   T+  +F ++ I + +      ++ 
Sbjct: 2   PQSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITV-NGQEYHLQLV 59

Query: 89  DTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGN 147
           DTAGQ+ Y+     Y       ++VY +TS  SF   +    + L   G   I + LVGN
Sbjct: 60  DTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGN 119

Query: 148 KADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
           K DLH +R +  ++G   AE     F+E+SAK       +F  I     +   + 
Sbjct: 120 KKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMDGAC 174

>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 =  207 bits (528), Expect = 9e-69
 Identities = 56/183 (30%), Positives = 101/183 (55%), Gaps = 4/183 (2%)

Query: 17  GLNNLENAGSSDAKNLRV-KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTI 75
           G   +   G     +L + K++++G  GVGKS + L+F+  +F    + T   S+  + +
Sbjct: 1   GSPGISGGGGGSQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKV 59

Query: 76  ALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE-LQK 134
            L D   V+ +I DTAGQE YAA+   Y+R     + V+ IT  +SF     + ++ L+ 
Sbjct: 60  VL-DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRV 118

Query: 135 HGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKR 194
               ++   LVGNK+DL +KR+V  ++    AE+  + ++ETSAKT  N++++F ++ + 
Sbjct: 119 KEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMRE 178

Query: 195 LPR 197
           +  
Sbjct: 179 IRA 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 =  205 bits (523), Expect = 3e-68
 Identities = 52/160 (32%), Positives = 94/160 (58%), Gaps = 3/160 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G  GVGKS + L+F+  +F    + T   S+  + + L D   V+ +I DTAGQE
Sbjct: 6   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVL-DGEEVQIDILDTAGQE 63

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHE 153
            YAA+   Y+R     + V+ IT  +SF     + ++ L+     ++   LVGNK+DL +
Sbjct: 64  DYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED 123

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
           KR+V  ++    A++  + ++ETSAKT  N++++F ++ +
Sbjct: 124 KRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMR 163

>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 =  204 bits (522), Expect = 1e-67
 Identities = 65/190 (34%), Positives = 95/190 (50%), Gaps = 7/190 (3%)

Query: 10  RSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGAS 69
            SSG   G  NL     S AK+  VKL + G +GVGKS +V+RF+  +F      T+ ++
Sbjct: 7   HSSGVDLGTENLYF--QSMAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLEST 64

Query: 70  FLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWV 129
           +      + D   V  EI DTAGQE        + R     V+VYDIT   SF +     
Sbjct: 65  Y-RHQATI-DDEVVSMEILDTAGQEDTIQRE-GHMRWGEGFVLVYDITDRGSFEEVLPLK 121

Query: 130 KELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD-NINQL 187
             L +     ++ + LVGNKADL   R+V  ++G + A +    F E SA T + NI ++
Sbjct: 122 NILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEI 181

Query: 188 FEEIAKRLPR 197
           F E+ + + R
Sbjct: 182 FYELCREVRR 191

>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 =  202 bits (517), Expect = 7e-67
 Identities = 53/160 (33%), Positives = 94/160 (58%), Gaps = 3/160 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G  GVGKS + L+F+  +F    + T   S+  + + L D   V+ +I DTAGQE
Sbjct: 16  KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVL-DGEEVQIDILDTAGQE 73

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHE 153
            YAA+   Y+R     + V+ IT  +SF     + ++ L+     ++   LVGNK+DL +
Sbjct: 74  DYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED 133

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
           KR+V  ++    AE+  + ++ETSAKT  N++++F ++ +
Sbjct: 134 KRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMR 173

>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 =  201 bits (513), Expect = 2e-66
 Identities = 52/173 (30%), Positives = 88/173 (50%), Gaps = 7/173 (4%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV++G  GVGKS + ++F++  F      T+  S+ ++  ++ D    + +I DTAGQE
Sbjct: 11  KLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSY-TKICSV-DGIPARLDILDTAGQE 68

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHE 153
            + A+   Y R     ++V+ I    SFN+      + L+     D  + LVGNKADL  
Sbjct: 69  EFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLES 128

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE----EIAKRLPRPSPSS 202
           +R+VP  +   +   + + + E SAK   N+++ FE     + K   +  P S
Sbjct: 129 QRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQEQELPPS 181

>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 =  200 bits (510), Expect = 3e-66
 Identities = 54/169 (31%), Positives = 84/169 (49%), Gaps = 4/169 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           ++ + G  GVGKS +VLRFV+G F  +   TV  ++  Q I+  D +    +I DT G  
Sbjct: 5   RVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISC-DKSICTLQITDTTGSH 62

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQ--KHGSPDIVMALVGNKADLH 152
           ++ A+  L        ++VY ITS  S  + +   +++   K     I + LVGNK D  
Sbjct: 63  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 122

Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPS 201
             REV + +    A      F+ETSAK   N+ +LF+E+     R + S
Sbjct: 123 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRRTVS 171

>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 =  199 bits (508), Expect = 7e-66
 Identities = 55/164 (33%), Positives = 92/164 (56%), Gaps = 3/164 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+V+LG  GVGKS + ++FV G F      T+   +  + I + DS+    EI DTAG E
Sbjct: 5   KVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFY-RKEIEV-DSSPSVLEILDTAGTE 62

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHE 153
           ++A++  LY +     ++VY + +  SF   +    + ++      + + LVGNK DL  
Sbjct: 63  QFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLES 122

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           +REV + +G   AE+ G  F+ETSAK+   +++LF EI +++  
Sbjct: 123 EREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMNY 166

>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 =  196 bits (502), Expect = 4e-65
 Identities = 49/160 (30%), Positives = 76/160 (47%), Gaps = 4/160 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++LLG  GVGKS +   F   +  P ++   G ++  ++I + D       ++D   Q+
Sbjct: 4   KVLLLGAPGVGKSALARIFGGVEDGPEAE-AAGHTY-DRSIVV-DGEEASLMVYDIWEQD 60

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHE 153
               L           V+VY +T   SF KA     +L++   + D+ + LVGNK+DL  
Sbjct: 61  GGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVR 120

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
            REV   +G   A      FIETSA    N+  LFE + +
Sbjct: 121 SREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVR 160

>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 =  196 bits (501), Expect = 1e-64
 Identities = 50/166 (30%), Positives = 76/166 (45%), Gaps = 13/166 (7%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQF----DPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           ++VLLGD GVGK+ +   F   Q     +       G     +T+ + D       + DT
Sbjct: 6   RVVLLGDPGVGKTSLASLFAGKQERDLHEQL-----GEDVYERTLTV-DGEDTTLVVVDT 59

Query: 91  AGQER--YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGN 147
              E+   +       +G +  V+VY I    SF  A     +L++ H +  + + LVGN
Sbjct: 60  WEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGN 119

Query: 148 KADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
           KADL   REV  ++G   A      FIETSA    N+ +LFE + +
Sbjct: 120 KADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVR 165

>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 =  194 bits (496), Expect = 4e-64
 Identities = 51/164 (31%), Positives = 87/164 (53%), Gaps = 4/164 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV++G  GVGKS + ++ ++  F      T+  S+  + + + D  T   +I DTAGQE
Sbjct: 5   KLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVI-DGETCLLDILDTAGQE 62

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHE 153
            Y+A+   Y R     + V+ I +  SF     + +++++   S D+ M LVGNK+DL  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDL-A 121

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
            R V ++   + A   G+ +IETSAKT   +   F  + + + +
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 199

 Score =  195 bits (498), Expect = 6e-64
 Identities = 55/170 (32%), Positives = 87/170 (51%), Gaps = 5/170 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           ++V+ G  GVGKS +VLRFV+G F  T   T+  ++  Q I+  D +    +I DT G  
Sbjct: 10  RVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISC-DKSVCTLQITDTTGSH 67

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQ--KHGSPDIVMALVGNKADLH 152
           ++ A+  L        ++V+ +TS  S  +     K +   K    DI + LVGNK D  
Sbjct: 68  QFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDET 127

Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
           + REV  ++    A++    F+ETSAK   N+ +LF+E+     R + S 
Sbjct: 128 Q-REVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNMSL 176

>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 =  194 bits (496), Expect = 1e-63
 Identities = 53/180 (29%), Positives = 89/180 (49%), Gaps = 6/180 (3%)

Query: 22  ENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGASFLSQTIAL--Q 78
           ++  SS++ N   ++VL+G+ GVGKS +   F        S    +G     +T+ +  +
Sbjct: 26  DSVISSESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGE 85

Query: 79  DSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-HGS 137
            +T +  ++W+  G+  +  L     +     ++VY IT   SF KA     +L++   +
Sbjct: 86  SATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQT 143

Query: 138 PDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
            DI + LVGNK+DL   REV   +G   A      FIETSA    N+ +LFE I +++  
Sbjct: 144 EDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRL 203

>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 =  190 bits (485), Expect = 3e-62
 Identities = 52/180 (28%), Positives = 87/180 (48%), Gaps = 4/180 (2%)

Query: 16  GGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTI 75
           G L ++  +          KLV++GD GVGKS + ++F +  F      T+  S+  +  
Sbjct: 1   GPLGSMATSAVPSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHT 59

Query: 76  ALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH 135
            + D+     ++ DTAGQE ++A+   Y R     ++VY +T   SF     + + + + 
Sbjct: 60  EI-DNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRV 118

Query: 136 -GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD-NINQLFEEIAK 193
                  M LV NK DL   R+V    G E A K  + +IETSAK    N+++ F ++ +
Sbjct: 119 KDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVR 178

>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 =  189 bits (483), Expect = 4e-62
 Identities = 56/161 (34%), Positives = 91/161 (56%), Gaps = 4/161 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV+LG  GVGKS + ++FV+G F      T+  S+  + + + D      EI DTAG E
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEV-DCQQCMLEILDTAGTE 62

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHE 153
           ++ A+  LY +      +VY IT+  +FN  Q   ++ L+   + D+ M LVGNK DL +
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122

Query: 154 KREVPAQDGIEYAEK-NGMFFIETSAKTADNINQLFEEIAK 193
           +R V  + G   A +     F+E+SAK+  N+N++F ++ +
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVR 163

>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 =  190 bits (484), Expect = 6e-62
 Identities = 52/160 (32%), Positives = 85/160 (53%), Gaps = 4/160 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV++G  GVGKS + ++ ++  F      T+  S+  + + + D  T   +I DTAGQE
Sbjct: 6   KLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVI-DGETCLLDILDTAGQE 63

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHE 153
            Y+A+   Y R     + V+ I +  SF    ++ +++++   S D+ M LVGNK DL  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS 123

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
            R V  +   + A   G+ FIETSAKT   ++  F  + +
Sbjct: 124 -RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVR 162

>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 =  190 bits (484), Expect = 6e-62
 Identities = 53/160 (33%), Positives = 84/160 (52%), Gaps = 4/160 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV++G  GVGKS + ++ ++  F      T+  S+  + + + D  T   +I DTAGQE
Sbjct: 23  KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVI-DGETCLLDILDTAGQE 80

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHE 153
            Y+A+   Y R     + V+ I +  SF     + +++++   S D+ M LVGNK DL  
Sbjct: 81  EYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT 140

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
            R V  +   E A+  G+ FIETSAKT   +   F  + +
Sbjct: 141 -RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVR 179

>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 =  188 bits (481), Expect = 1e-61
 Identities = 43/164 (26%), Positives = 74/164 (45%), Gaps = 7/164 (4%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           V L +LG  G GKS + ++F+  +F       +  ++ S    + D   V   + DTA  
Sbjct: 22  VNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETV-DHQPVHLRVMDTADL 79

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQ---KHGSPDIVMALVGNKAD 150
           +        Y   A   +VVY + S  SF+ +  +++ L    K     I   L+GNK D
Sbjct: 80  DTPRNC-ERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLD 138

Query: 151 LHEKREVPAQDGIEYAEKNGMFFIETSAKT-ADNINQLFEEIAK 193
           + + R+V   +G+  A + G  F E SA    +++  +F E  +
Sbjct: 139 MAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVR 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 =  188 bits (479), Expect = 3e-61
 Identities = 51/172 (29%), Positives = 83/172 (48%), Gaps = 6/172 (3%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGASFLSQTIAL--QDSTTVKFEIWDTA 91
           ++VL+G+ GVGKS +   F        S    +G     +T+ +  + +T +  ++W+  
Sbjct: 8   RVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWENK 67

Query: 92  GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKAD 150
           G+  +  L     +     ++VY IT   SF KA     +L++   + DI + LVGNK+D
Sbjct: 68  GENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSD 125

Query: 151 LHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPSS 202
           L   REV   +G   A      FIETSA    N+ +LFE I +++     S 
Sbjct: 126 LVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRRDSK 177

>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 =  176 bits (449), Expect = 7e-57
 Identities = 36/172 (20%), Positives = 70/172 (40%), Gaps = 20/172 (11%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQF---DPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +L +LGD+  GKS ++ RF+ G +   +     T    +  + + + D  T    I + A
Sbjct: 9   RLGVLGDARSGKSSLIHRFLTGSYQVLEK----TESEQY-KKEMLV-DGQTHLVLIREEA 62

Query: 92  GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK---HGSPDIVMALVG-- 146
           G          +   A   + V+ +   +SF        +L      G   + +ALVG  
Sbjct: 63  GAPDA-----KFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQ 117

Query: 147 NKADLHEKREVPAQDGIEY-AEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           ++      R V         A+     + ET A    N++++F+E+A+++  
Sbjct: 118 DRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVT 169

>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 =  171 bits (437), Expect = 6e-55
 Identities = 32/168 (19%), Positives = 65/168 (38%), Gaps = 20/168 (11%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQF----DPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           K+ ++G+   GKS +V R++ G +     P      G  F  + I + D  +    I D 
Sbjct: 22  KVGIVGNLSSGKSALVHRYLTGTYVQEESPE-----GGRF-KKEIVV-DGQSYLLLIRDE 74

Query: 91  AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKA 149
            G          +       V V+ +    SF     +   L     + ++ M LVG + 
Sbjct: 75  GGPPELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQD 129

Query: 150 DLHE--KREVPAQDGIEYA-EKNGMFFIETSAKTADNINQLFEEIAKR 194
            +     R +      + + +     + ET A    N+ ++F+++A++
Sbjct: 130 AISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQK 177

>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 =  155 bits (393), Expect = 3e-48
 Identities = 54/196 (27%), Positives = 94/196 (47%), Gaps = 9/196 (4%)

Query: 11  SSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASF 70
           S+      +    AG  +     +K+V++GD  VGK+C++L F +G+       TV  +F
Sbjct: 1   SNAMLAFSDMNTGAGKIENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENF 60

Query: 71  LSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQY-WV 129
            S  +    +      +WDTAGQE Y  L PL Y  + V ++ + + +  SF+     W 
Sbjct: 61  -SHVMKY-KNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWE 118

Query: 130 KELQKHGSPDIVMALVGNKADLHE--KREVPAQDGIEYAEKNG-MFFIETSAKTADNINQ 186
            E++ +        LVG K DL +    +V  Q+G +  +K G + +IE S+     +N+
Sbjct: 119 PEIKHY-IDTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNE 177

Query: 187 LFEEIAKRL--PRPSP 200
           +FE+    +   +P P
Sbjct: 178 VFEKSVDCIFSNKPVP 193

>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 =  149 bits (379), Expect = 3e-46
 Identities = 52/177 (29%), Positives = 92/177 (51%), Gaps = 15/177 (8%)

Query: 29  AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIW 88
           + +  +K V +GD  VGK+C+++ +    F      TV  +F +  +   +  TV   +W
Sbjct: 4   SASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVV--VNGATVNLGLW 61

Query: 89  DTAGQERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGN 147
           DTAGQE Y  L PL YRGA V ++ + + S  S+ N ++ W+ EL+ + +P + + LVG 
Sbjct: 62  DTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHY-APGVPIVLVGT 120

Query: 148 KADLHEKRE----------VPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEEIAK 193
           K DL + ++          +    G E  +  G   +IE S+K+ +N+  +F+   +
Sbjct: 121 KLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIR 177

>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 =  149 bits (378), Expect = 6e-46
 Identities = 61/207 (29%), Positives = 94/207 (45%), Gaps = 25/207 (12%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MG S      SSG             S    +R KLV++GD   GK+C+++ F + QF  
Sbjct: 1   MGSSHHHHHHSSGLV--------PRGSHMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPE 52

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
               TV  ++        D   V+  +WDTAGQE Y  L PL Y    V ++ + I SPD
Sbjct: 53  VYVPTVFENY--IADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPD 110

Query: 121 SFNKAQY-WVKELQKHGSPDIVMALVGNKADLHEKRE------------VPAQDGIEYAE 167
           S       W  E++    P++ + LVGNK DL +               V +++G + A 
Sbjct: 111 SLENIPEKWTPEVKHF-CPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMAN 169

Query: 168 KNG-MFFIETSAKTADNINQLFEEIAK 193
           +     ++E SAKT + + ++FE   +
Sbjct: 170 RISAFGYLECSAKTKEGVREVFEMATR 196

>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 =  147 bits (373), Expect = 6e-45
 Identities = 58/180 (32%), Positives = 97/180 (53%), Gaps = 15/180 (8%)

Query: 25  GSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGASFLSQTIALQDSTTV 83
           GS  + +  +K V +GD  VGK+C+++ +   +F PT  + TV  +F +      D   V
Sbjct: 1   GSHMSVSKFIKCVTVGDGAVGKTCMLICYTSNKF-PTDYIPTVFDNFSANVAV--DGQIV 57

Query: 84  KFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVM 142
              +WDTAGQE Y+ L PL YRGA + V+ + + S  S+ N  + W+ EL++  +P++ +
Sbjct: 58  NLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRF-APNVPI 116

Query: 143 ALVGNKADLHEKRE--------VPAQDGIEYAEKNGMF-FIETSAKTADNINQLFEEIAK 193
            LVG K DL + +         + +  G E  ++ G   +IE S+KT  N+  +F+   K
Sbjct: 117 VLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIK 176

>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 =  147 bits (372), Expect = 7e-45
 Identities = 62/202 (30%), Positives = 95/202 (47%), Gaps = 21/202 (10%)

Query: 10  RSSGQSGGLNNLENAGSSDAKN----LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVT 65
            SSG   G  NL     +  +       VK+VL+GD G GK+ +++ F  G F  +   T
Sbjct: 7   HSSGVDLGTENLYFQSMAGEEAPPGVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPT 66

Query: 66  VGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSF-NK 124
           V   +            V   IWDTAGQ+ Y  L PL+Y  A+V ++ +D+TSP+SF N 
Sbjct: 67  VFERY--MVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNI 124

Query: 125 AQYWVKELQKHGSPDIVMALVGNKADLHEKRE------------VPAQDGIEYAEKNG-M 171
              W  E+       + + +VG K DL + +             V    G E A   G +
Sbjct: 125 FNRWYPEVNHF-CKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAV 183

Query: 172 FFIETSAKTADNINQLFEEIAK 193
            ++E SA+  DN++ +F+E A+
Sbjct: 184 AYLECSARLHDNVHAVFQEAAE 205

>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 =  146 bits (370), Expect = 1e-44
 Identities = 59/210 (28%), Positives = 97/210 (46%), Gaps = 26/210 (12%)

Query: 1   MGCSGSVPARSSG---QSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQ 57
           MG S      SSG   +   + NL   G +      +K V++GD  VGK+C+++ +    
Sbjct: 1   MGSSHHHHHHSSGLVPRGSHMENLYFQGQA------IKCVVVGDGAVGKTCLLISYTTNA 54

Query: 58  FDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDIT 117
           F      TV  ++ +  +   D   V   +WDTAGQE Y  L PL Y    V ++ + + 
Sbjct: 55  FPGEYIPTVFDNYSANVMV--DGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLV 112

Query: 118 SPDSF-NKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE------------VPAQDGIE 164
           SP SF N    W  E++ H  P+  + LVG K DL + ++            +    G+ 
Sbjct: 113 SPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLA 171

Query: 165 YAEKNG-MFFIETSAKTADNINQLFEEIAK 193
            A++ G + ++E SA T   +  +F+E  +
Sbjct: 172 MAKEIGAVKYLECSALTQRGLKTVFDEAIR 201

>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 =  144 bits (365), Expect = 6e-44
 Identities = 54/176 (30%), Positives = 85/176 (48%), Gaps = 17/176 (9%)

Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++ F + +F      TV  ++        D   V+  +WDTA
Sbjct: 24  IRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENY--VADIEVDGKQVELALWDTA 81

Query: 92  GQERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNKAD 150
           GQE Y  L PL Y    V ++ + + SPDS  N  + WV E++    P++ + LV NK D
Sbjct: 82  GQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHF-CPNVPIILVANKKD 140

Query: 151 LHEKRE------------VPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEEIAK 193
           L                 V   DG   A +     ++E SAKT + + ++FE   +
Sbjct: 141 LRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATR 196

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  142 bits (360), Expect = 3e-43
 Identities = 51/185 (27%), Positives = 86/185 (46%), Gaps = 17/185 (9%)

Query: 23  NAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTT 82
              +  A+   VK VL+GD  VGK+ +V+ +    +      T   +F +      D   
Sbjct: 10  RGRAGGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFSAVVSV--DGRP 67

Query: 83  VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIV 141
           V+ ++ DTAGQ+ +  L PL Y    + ++ + + SP SF N ++ WV E++ H  P   
Sbjct: 68  VRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCH-CPKAP 126

Query: 142 MALVGNKADLHEKRE------------VPAQDGIEYAEKNG-MFFIETSAKTADNINQLF 188
           + LVG ++DL E  +            VP +     AE+     +IE SA T  N+ ++F
Sbjct: 127 IILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF 186

Query: 189 EEIAK 193
           +    
Sbjct: 187 DAAIV 191

>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 =  137 bits (348), Expect = 1e-41
 Identities = 44/179 (24%), Positives = 82/179 (45%), Gaps = 18/179 (10%)

Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           +N++ K+V++GDS  GK+ ++  F +  F      TV  ++        D+  ++  +WD
Sbjct: 4   QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY--TASFEIDTQRIELSLWD 61

Query: 90  TAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQY-WVKELQKHGSPDIVMALVGNK 148
           T+G   Y  + PL Y  +   ++ +DI+ P++ +     W  E+Q+   P+  M LVG K
Sbjct: 62  TSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPNTKMLLVGCK 120

Query: 149 ADLHEKRE------------VPAQDGIEYAEKNG-MFFIETSAKTA-DNINQLFEEIAK 193
           +DL                 V    G   A++ G   +IE SA  + +++  +F     
Sbjct: 121 SDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATL 179

>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 =  138 bits (349), Expect = 1e-41
 Identities = 47/182 (25%), Positives = 82/182 (45%), Gaps = 17/182 (9%)

Query: 26  SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKF 85
           +     L +K V++GD  VGK+C+++ +    F      TV   +               
Sbjct: 11  AHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTV--GGKQYLL 68

Query: 86  EIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVMAL 144
            ++DTAGQE Y  L PL Y    V ++ + + +P SF N  + WV EL K  +P++   L
Sbjct: 69  GLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPEL-KEYAPNVPFLL 127

Query: 145 VGNKADLHEKRE------------VPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEEI 191
           +G + DL +  +            +  + G + A++ G   ++E SA T   +  +F+E 
Sbjct: 128 IGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEA 187

Query: 192 AK 193
             
Sbjct: 188 II 189

>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 =  138 bits (350), Expect = 1e-41
 Identities = 48/208 (23%), Positives = 87/208 (41%), Gaps = 25/208 (12%)

Query: 15  SGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQT 74
           SG  N      +      R KLVL+GD   GK+ ++    +  +  T   TV  ++    
Sbjct: 9   SGRENLYFQGRAPQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY--TA 66

Query: 75  IALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQ 133
               +   V+  +WDT+G   Y  + PL Y  +   ++ +DI+ P++  +  + W  E+ 
Sbjct: 67  CLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEIL 126

Query: 134 KHGSPDIVMALVGNKADLHEKRE------------VPAQDGIEYAEKNG-MFFIETSAKT 180
            +  P   + L+G K DL                 +  + G   A++ G   ++E SA T
Sbjct: 127 DY-CPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFT 185

Query: 181 A-DNINQLFEEIA-------KRLPRPSP 200
           +  +I+ +F   +         LP+ SP
Sbjct: 186 SEKSIHSIFRTASMLCLNKPSPLPQKSP 213

>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 =  138 bits (349), Expect = 2e-41
 Identities = 51/208 (24%), Positives = 93/208 (44%), Gaps = 23/208 (11%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MG S      SSG     +++        +N++ K+V++GDS  GK+ ++  F +  F  
Sbjct: 1   MGSSHHHHHHSSGLVPRGSHM-----DPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPE 55

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
               TV  ++        D+  ++  +WDT+G   Y  + PL Y  +   ++ +DI+ P+
Sbjct: 56  NYVPTVFENY--TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPE 113

Query: 121 SFNKAQY-WVKELQKHGSPDIVMALVGNKADL------------HEKREVPAQDGIEYAE 167
           + +     W  E+Q+   P+  M LVG K+DL            H +  V    G   A+
Sbjct: 114 TLDSVLKKWKGEIQEF-CPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAK 172

Query: 168 KNG-MFFIETSAKTA-DNINQLFEEIAK 193
           + G   +IE SA  + +++  +F     
Sbjct: 173 QIGAATYIECSALQSENSVRDIFHVATL 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 =  136 bits (345), Expect = 4e-41
 Identities = 50/179 (27%), Positives = 86/179 (48%), Gaps = 17/179 (9%)

Query: 29  AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIW 88
                +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +W
Sbjct: 1   GSPQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV--DGKPVNLGLW 58

Query: 89  DTAGQERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGN 147
           DTAGQE Y  L PL Y    V+++ + + SP SF N    W  E++ H  P+  + LVG 
Sbjct: 59  DTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGT 117

Query: 148 KADLHEKRE------------VPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEEIAK 193
           K DL + ++            +    G+  A++ G + ++E SA T   +  +F+E  +
Sbjct: 118 KLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIR 176

>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 =  108 bits (271), Expect = 2e-29
 Identities = 39/218 (17%), Positives = 69/218 (31%), Gaps = 65/218 (29%)

Query: 40  GDSGVGKSCIVLRFVR--------------GQFDPTSKVTVGASFL---SQTIALQDSTT 82
           G  G+GKSC+  RFVR                 D   +V     FL     + +L+D   
Sbjct: 35  GQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVE 94

Query: 83  VKFEIW-------DTAGQERYAALAPLYYRGAAV-------------------------- 109
            K  I        D   Q   +     Y + AA                           
Sbjct: 95  CKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQK 154

Query: 110 -----------AVVVYDITSPD--SFNKAQYWVKELQKHGSPD-IVMALVGNKADLHEKR 155
                       ++  D++     +F+    +V  L    +     + +V  K D   +R
Sbjct: 155 QMPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVER 214

Query: 156 EVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
            +        ++KN +  +ETSA++  N++  F  + +
Sbjct: 215 YIRDAHTFALSKKN-LQVVETSARSNVNVDLAFSTLVQ 251

>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 =  101 bits (253), Expect = 4e-26
 Identities = 50/200 (25%), Positives = 88/200 (44%), Gaps = 17/200 (8%)

Query: 8   PARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVG 67
              +  +   L         +A    +K V++GD  VGK+C+++ +    F P   +   
Sbjct: 130 RDAAEREGVMLIKKTAENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAF-PGEYIPTV 188

Query: 68  ASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQ 126
               S  + + D   V   +WDTAG E Y  L PL Y    V ++ + + SP SF +   
Sbjct: 189 FDNYSANVMV-DGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRA 247

Query: 127 YWVKELQKHGSPDIVMALVGNKADLHEKRE------------VPAQDGIEYAEKNG-MFF 173
            W  E++ H  P+  + LVG K DL + ++            +    G+  A++ G + +
Sbjct: 248 KWYPEVRHH-CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKY 306

Query: 174 IETSAKTADNINQLFEEIAK 193
           +E SA T   +  +F+E  +
Sbjct: 307 LECSALTQRGLKTVFDEAIR 326

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 87.4 bits (216), Expect = 4e-21
 Identities = 33/180 (18%), Positives = 69/180 (38%), Gaps = 18/180 (10%)

Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           L  KL+L+G SG GKS +    +   +       +GA+   +   L+    +   +WD  
Sbjct: 2   LGSKLLLMGRSGSGKSSM-RSIIFSNYSAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCG 60

Query: 92  GQERY-----AALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQ--KHGSPDIVMAL 144
           GQ+ +            ++   V + V+D+ S +     + + K L+  +  SPD  + +
Sbjct: 61  GQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFV 120

Query: 145 VGNKADL---------HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           + +K DL          +       +         +    TS    +++ + + +I   L
Sbjct: 121 LLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWD-ESLYKAWSQIVCSL 179

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A* Length = 196

 Score = 79.2 bits (195), Expect = 8e-19
 Identities = 36/198 (18%), Positives = 78/198 (39%), Gaps = 23/198 (11%)

Query: 18  LNNLENAGSSDAKNL----RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQ 73
           +++  +  S          + +++L+G    GKS I  + V  +  P   + + ++    
Sbjct: 1   MHHHHHHSSGRENLYFQGSKPRILLMGLRRSGKSSI-QKVVFHKMSPNETLFLESTNKIY 59

Query: 74  TIALQDSTTVKFEIWDTAGQERYAALAP---LYYRGAAVAVVVYDITS--PDSFNKAQYW 128
              + +S+ V F+IWD  GQ  +        + +RG    + V D      ++  +    
Sbjct: 60  KDDISNSSFVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHIT 119

Query: 129 VKELQKHGSPDIVMALVGNKADL-------HEKREVPAQ----DGIEYAEKNGMFFIETS 177
           V +  K  +PD+   +  +K D          +R++  +          EK  + F  TS
Sbjct: 120 VSKAYKV-NPDMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTS 178

Query: 178 AKTADNINQLFEEIAKRL 195
                +I + F ++ ++L
Sbjct: 179 IYD-HSIFEAFSKVVQKL 195

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A* Length = 198

 Score = 77.1 bits (190), Expect = 7e-18
 Identities = 36/187 (19%), Positives = 67/187 (35%), Gaps = 20/187 (10%)

Query: 26  SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-----------TVGASFLSQT 74
           +   + +  K+V  G    GK+   L+++  +     K            T+   FL   
Sbjct: 7   NFANREINFKIVYYGPGLSGKTTN-LKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLD 65

Query: 75  IALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYW---VKE 131
           I        +F ++   GQ  Y A   L  RG    V V D         A+      + 
Sbjct: 66  IGEVKGFKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMREN 125

Query: 132 LQKHGSP--DIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFI-ETSAKTADNINQLF 188
           L ++G    D+ + +  NK DL     +P +      +  G F + E  A     + +  
Sbjct: 126 LAEYGLTLDDVPIVIQVNKRDL--PDALPVEMVRAVVDPEGKFPVLEAVATEGKGVFETL 183

Query: 189 EEIAKRL 195
           +E+++ +
Sbjct: 184 KEVSRLV 190

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 60.8 bits (147), Expect = 2e-11
 Identities = 21/121 (17%), Positives = 44/121 (36%), Gaps = 9/121 (7%)

Query: 36  LVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER 95
           ++L+G    GKS I  + V     P   + + ++          ST +   + +  GQ  
Sbjct: 2   VLLMGVRRCGKSSI-CKVVFHNMQPLDTLYLESTSNPSLEHF--STLIDLAVMELPGQLN 58

Query: 96  YAALAPL---YYRGAAVAVVVYDITSP--DSFNKAQYWVKELQKHGSPDIVMALVGNKAD 150
           Y   +      ++     V V D      ++       ++   K  +P I + ++ +K D
Sbjct: 59  YFEPSYDSERLFKSVGALVYVIDSQDEYINAITNLAMIIEYAYKV-NPSINIEVLIHKVD 117

Query: 151 L 151
            
Sbjct: 118 G 118

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A* Length = 186

 Score = 58.8 bits (143), Expect = 3e-11
 Identities = 38/176 (21%), Positives = 68/176 (38%), Gaps = 26/176 (14%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           ++L++LG    GK+ I+ +F     D  S  T+G  F  +T+  +     K  IWD  GQ
Sbjct: 19  LRLLMLGLDNAGKTTILKKFNGEDVDTISP-TLG--FNIKTLEHRG---FKLNIWDVGGQ 72

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-------HGSPDIVMALVG 146
           +   +    Y+      + V D          Q   +ELQ         G+  ++ A   
Sbjct: 73  KSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQ---RELQSLLVEERLAGATLLIFA--- 126

Query: 147 NKADLHEK---REVPAQDGIEYAEKNGMFFIETSAKTADNINQ----LFEEIAKRL 195
           NK DL        +     ++    +       SA T +++      L ++I+ R+
Sbjct: 127 NKQDLPGALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSRV 182

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 187

 Score = 58.4 bits (142), Expect = 4e-11
 Identities = 37/181 (20%), Positives = 69/181 (38%), Gaps = 26/181 (14%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
            K++++G    GK+ I+ +F   +   TS  T+G     + I + +    +F +WD  GQ
Sbjct: 17  HKVIIVGLDNAGKTTILYQFSMNEVVHTSP-TIG--SNVEEIVINN---TRFLMWDIGGQ 70

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-------HGSPDIVMALVG 146
           E   +    YY      +VV D T  +  +  +   +EL K         +  ++ A   
Sbjct: 71  ESLRSSWNTYYTNTEFVIVVVDSTDRERISVTR---EELYKMLAHEDLRKAGLLIFA--- 124

Query: 147 NKADLHE---KREVPAQDGIEYAEKNGMFFIETSAKTADNINQ----LFEEIAKRLPRPS 199
           NK D+ E     E+     +   + +        A T + + Q    +   +  RL    
Sbjct: 125 NKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLKIRLEHHH 184

Query: 200 P 200
            
Sbjct: 185 H 185

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ... Length = 164

 Score = 57.2 bits (139), Expect = 7e-11
 Identities = 35/175 (20%), Positives = 74/175 (42%), Gaps = 26/175 (14%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           ++++++G    GK+ I+ +   G+   T   T+G  F  +T+  ++   + F +WD  GQ
Sbjct: 1   MRILMVGLDAAGKTTILYKLKLGEIVTTIP-TIG--FNVETVEYKN---ISFTVWDVGGQ 54

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-------HGSPDIVMALVG 146
           ++   L   Y++     + V D    +  N+A+   +EL +         +  +V A   
Sbjct: 55  DKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAR---EELMRMLAEDELRDAVLLVFA--- 108

Query: 147 NKADLHEK---REVPAQDGIEYAEKNGMFFIETSAKTADNINQ----LFEEIAKR 194
           NK DL       E+  + G+        +   T A + D + +    L  ++  +
Sbjct: 109 NKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ 163

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A* Length = 171

 Score = 57.2 bits (139), Expect = 8e-11
 Identities = 41/184 (22%), Positives = 72/184 (39%), Gaps = 28/184 (15%)

Query: 25  GSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVK 84
           GS   + +R+  ++LG  G GK+ I+ R   G+   T   T+G  F  +T+  ++   +K
Sbjct: 1   GSHMTREMRI--LILGLDGAGKTTILYRLQVGEVVTTIP-TIG--FNVETVTYKN---LK 52

Query: 85  FEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-------HGS 137
           F++WD  G          YY      + V D    D    ++    EL           +
Sbjct: 53  FQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISK---SELVAMLEEEELRKA 109

Query: 138 PDIVMALVGNKADLHE---KREVPAQDGIEYAEKNGMFFIETSAKTADNINQ----LFEE 190
             +V A   NK D+ +     E+    G+   +       +TSA     +++    L E 
Sbjct: 110 ILVVFA---NKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVET 166

Query: 191 IAKR 194
           +  R
Sbjct: 167 LKSR 170

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A* Length = 192

 Score = 56.9 bits (138), Expect = 1e-10
 Identities = 36/175 (20%), Positives = 73/175 (41%), Gaps = 26/175 (14%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           ++++++G    GK+ I+ +   G+   T   T+G  F  +T+  ++   + F +WD  GQ
Sbjct: 30  MRILMVGLDAAGKTTILYKLKLGEIVTTIP-TIG--FNVETVEYKN---ICFTVWDVGGQ 83

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-------HGSPDIVMALVG 146
           ++   L   Y++     + V D    +   ++     ELQK         +  +V A   
Sbjct: 84  DKIRPLWRHYFQNTQGLIFVVDSNDRERVQESA---DELQKMLQEDELRDAVLLVFA--- 137

Query: 147 NKADLHEK---REVPAQDGIEYAEKNGMFFIETSAKTADNINQ----LFEEIAKR 194
           NK D+       E+  + G+++      +   T A     +      L  E++KR
Sbjct: 138 NKQDMPNAMPVSELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSHELSKR 192

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 183

 Score = 56.9 bits (138), Expect = 2e-10
 Identities = 41/175 (23%), Positives = 70/175 (40%), Gaps = 26/175 (14%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +++++LG  G GK+ I+ R   G+   T   T+G  F  +T++ ++   +K  +WD  GQ
Sbjct: 19  LRILILGLDGAGKTTILYRLQIGEVVTTKP-TIG--FNVETLSYKN---LKLNVWDLGGQ 72

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-------HGSPDIVMALVG 146
                    YY   A  + V D T  D  + A    KEL           +  +V A   
Sbjct: 73  TSIRPYWRCYYADTAAVIFVVDSTDKDRMSTAS---KELHLMLQEEELQDAALLVFA--- 126

Query: 147 NKADLHEK---REVPAQDGIEYAEKNGMFFIETSAKTADNINQ----LFEEIAKR 194
           NK D        EV  +  +   +      + +SA   + I +    L + I + 
Sbjct: 127 NKQDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE 181

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 55.7 bits (135), Expect = 4e-10
 Identities = 41/175 (23%), Positives = 72/175 (41%), Gaps = 26/175 (14%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +++++LG    GK+ I+ R   G    T   TVG     +T+  ++   + FE+WD  GQ
Sbjct: 23  IRVLMLGLDNAGKTSILYRLHLGDVVTTVP-TVG--VNLETLQYKN---ISFEVWDLGGQ 76

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-------HGSPDIVMALVG 146
                    Y+      + V D T  D    A+    EL           S  ++ A   
Sbjct: 77  TGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAK---HELYALLDEDELRKSLLLIFA--- 130

Query: 147 NKADLHE---KREVPAQDGIEYAEKNGMFFIETSAKTADNINQ----LFEEIAKR 194
           NK DL +   + E+  Q G+          +++S+KT D + +    L E + ++
Sbjct: 131 NKQDLPDAASEAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLVERLREQ 185

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A* Length = 188

 Score = 55.3 bits (134), Expect = 6e-10
 Identities = 49/208 (23%), Positives = 78/208 (37%), Gaps = 36/208 (17%)

Query: 1   MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP 60
           MG S      SSG     +  E           ++L L+G    GK+  V     GQF+ 
Sbjct: 1   MGSSHHHHHHSSGLVPRGSKEE-----------MELTLVGLQYSGKTTFVNVIASGQFNE 49

Query: 61  TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD 120
               TVG  F  + I   +   V  ++WD  GQ R+ ++   Y RG +  V + D    +
Sbjct: 50  DMIPTVG--FNMRKITKGN---VTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQE 104

Query: 121 SFNKAQYWVKELQK-------HGSPDIVMALVGNKADLHE---KREVPAQDGIEYAEKNG 170
               ++    EL          G P +V+    NK DL     ++E+  +  +   +   
Sbjct: 105 KIEASK---NELHNLLDKPQLQGIPVLVLG---NKRDLPGALDEKELIEKMNLSAIQDRE 158

Query: 171 MFFIETSAKTADNINQ----LFEEIAKR 194
           +     S K  DNI+     L +    R
Sbjct: 159 ICCYSISCKEKDNIDITLQWLIQHSKSR 186

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A* Length = 181

 Score = 54.2 bits (131), Expect = 1e-09
 Identities = 42/195 (21%), Positives = 75/195 (38%), Gaps = 27/195 (13%)

Query: 11  SSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASF 70
           S       + L   GS   +  +V  +++G    GK+ I+ +F   +   TS  T+G   
Sbjct: 4   SHHHHHHSSGLVPRGS---QEHKV--IIVGLDNAGKTTILYQFSMNEVVHTSP-TIG--S 55

Query: 71  LSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVK 130
             + I + +    +F +WD  GQE   +    YY      +VV D T  +  +  +   +
Sbjct: 56  NVEEIVINN---TRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTR---E 109

Query: 131 ELQK-------HGSPDIVMALVGNKADLHE---KREVPAQDGIEYAEKNGMFFIETSAKT 180
           EL K         +  ++ A   NK D+ E     E+     +   + +        A T
Sbjct: 110 ELYKMLAHEDLRKAGLLIFA---NKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALT 166

Query: 181 ADNINQLFEEIAKRL 195
            + + Q  E +  RL
Sbjct: 167 GEGLCQGLEWMMSRL 181

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A* Length = 181

 Score = 53.4 bits (129), Expect = 3e-09
 Identities = 31/175 (17%), Positives = 60/175 (34%), Gaps = 26/175 (14%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           V+++LLG    GK+ ++ +         +  T G  F  +++  Q     K  +WD  GQ
Sbjct: 17  VRILLLGLDNAGKTTLLKQLASEDISHITP-TQG--FNIKSVQSQG---FKLNVWDIGGQ 70

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-------HGSPDIVMALVG 146
            +       Y+    + + V D      F +     +EL +          P ++ A   
Sbjct: 71  RKIRPYWRSYFENTDILIYVIDSADRKRFEETG---QELTELLEEEKLSCVPVLIFA--- 124

Query: 147 NKADLHE---KREVPAQDGIEYAEKNGMFFIETSAKTADNINQ----LFEEIAKR 194
           NK DL       E+     +             SA T + +      + + +  +
Sbjct: 125 NKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVNAK 179

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2 Length = 214

 Score = 53.6 bits (129), Expect = 3e-09
 Identities = 23/130 (17%), Positives = 48/130 (36%), Gaps = 14/130 (10%)

Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K+ +  ++ +G    GK+ + +R + GQ+  T   ++     S    + ++      + D
Sbjct: 4   KSSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSIT--DSSAIYKVNNNRGNSLTLID 60

Query: 90  TAGQERY-AALAPLYYRGAAVAVVVYDITSPDSFNK--AQYWVK-----ELQKHGSPDIV 141
             G E     L   +   A   V V D  +     K  A++  +        K+    ++
Sbjct: 61  LPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLI 120

Query: 142 MALVGNKADL 151
                NK D+
Sbjct: 121 AC---NKQDI 127

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens} Length = 190

 Score = 51.9 bits (125), Expect = 1e-08
 Identities = 37/198 (18%), Positives = 70/198 (35%), Gaps = 27/198 (13%)

Query: 11  SSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGAS 69
           S       + L   GS   K + V  + LG    GK+ I+ +         + + T+G  
Sbjct: 4   SHHHHHHSSGLVPRGS---KEVHV--LCLGLDNSGKTTIINKLKPSNAQSQNILPTIG-- 56

Query: 70  FLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWV 129
           F  +         + F ++D +GQ RY  L   YY+     + V D +       A+  +
Sbjct: 57  FSIEKFKSSS---LSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEEL 113

Query: 130 ------KELQKHGSPDIVMALVGNKADLHE---KREVPAQDGIEYAEKNGMFFIETSAKT 180
                  +++    P +  A   NK DL +     +V     +E  +        + A  
Sbjct: 114 DTLLNHPDIKHRRIPILFFA---NKMDLRDAVTSVKVSQLLCLENIKDKPWHICASDAIK 170

Query: 181 ADNINQ----LFEEIAKR 194
            + + +    L ++I   
Sbjct: 171 GEGLQEGVDWLQDQIQTV 188

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae} Length = 193

 Score = 50.5 bits (121), Expect = 4e-08
 Identities = 28/162 (17%), Positives = 56/162 (34%), Gaps = 27/162 (16%)

Query: 5   GSVPARSSGQ-SGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK 63
           GS+  R   Q    ++     GS    + +  +++ G    GK+ ++         PT  
Sbjct: 19  GSINKRKISQWREWIDEKLGGGSGGGGSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTV- 77

Query: 64  VTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV--VVYDITSPDS 121
           V+         ++  D       + D  G  +       Y +  A  V  +++ +   DS
Sbjct: 78  VSQE------PLSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMV---DS 128

Query: 122 FN-------KAQY-----WVKELQKHGSPDIVMALVGNKADL 151
                     A++      + E       DI++A   NK++L
Sbjct: 129 TVDPKKLTTTAEFLVDILSITESSCENGIDILIA--CNKSEL 168

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana} Length = 423

 Score = 50.0 bits (120), Expect = 1e-07
 Identities = 14/88 (15%), Positives = 31/88 (35%), Gaps = 8/88 (9%)

Query: 109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK 168
             ++V D             V   ++   P +   +V NK D+  ++    +    Y  +
Sbjct: 116 CGILVTDSAPTPY---EDDVVNLFKEMEIPFV---VVVNKIDVLGEKAEELKG--LYESR 167

Query: 169 NGMFFIETSAKTADNINQLFEEIAKRLP 196
                +  SA      + + + I++ LP
Sbjct: 168 YEAKVLLVSALQKKGFDDIGKTISEILP 195

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A* Length = 198

 Score = 46.1 bits (110), Expect = 1e-06
 Identities = 21/125 (16%), Positives = 42/125 (33%), Gaps = 19/125 (15%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
            KLV LG    GK+ ++      +       T+     S+ + +     + F  +D  G 
Sbjct: 26  GKLVFLGLDNAGKTTLLHMLKDDRLGQHVP-TLH--PTSEELTIA---GMTFTTFDLGGH 79

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-------HGSPDIVMALVG 146
            +   +   Y       V + D    +   +++   +EL            P +++    
Sbjct: 80  IQARRVWKNYLPAINGIVFLVDCADHERLLESK---EELDSLMTDETIANVPILILG--- 133

Query: 147 NKADL 151
           NK D 
Sbjct: 134 NKIDR 138

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens} Length = 329

 Score = 46.8 bits (111), Expect = 1e-06
 Identities = 38/198 (19%), Positives = 77/198 (38%), Gaps = 26/198 (13%)

Query: 11  SSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASF 70
           S   S   N              ++++++G    GK+ I+ +   G+   T   T+G  F
Sbjct: 143 SLESSPAQNWTPPQPRGLFGKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIP-TIG--F 199

Query: 71  LSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVK 130
             +T+  ++   + F +WD  GQ++   L   Y++     + V D    +  N+A+   +
Sbjct: 200 NVETVEYKN---ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAR---E 253

Query: 131 ELQK-------HGSPDIVMALVGNKADLHE---KREVPAQDGIEYAEKNGMFFIETSAKT 180
           EL +         +  +V A   NK DL       E+  + G+        +   T A +
Sbjct: 254 ELMRMLAEDELRDAVLLVFA---NKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATS 310

Query: 181 ADNINQ----LFEEIAKR 194
            D + +    L  ++  +
Sbjct: 311 GDGLYEGLDWLSNQLRNQ 328

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 47.2 bits (111), Expect = 2e-06
 Identities = 29/224 (12%), Positives = 46/224 (20%), Gaps = 76/224 (33%)

Query: 18  LNNLENAGSSDAKNLRV--KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTI 75
              L  A       LR    +++ G  G GK+ + L                        
Sbjct: 137 YLKLRQA----LLELRPAKNVLIDGVLGSGKTWVALD----------------------- 169

Query: 76  ALQDSTTVK---FEI-WDTAGQER-----YAALAPLYYRGAAVAVVVYDITS--PDSFNK 124
                       F+I W               L  L Y+         D +S      + 
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229

Query: 125 AQYWVKELQKHG-------------SPDIVMAL--------------VGNKADLHEKREV 157
            Q  ++ L K               +     A               V +         +
Sbjct: 230 IQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI 289

Query: 158 P---AQDGIEYAEKNGMFFIETSAKTAD-NINQLFEEIAKRLPR 197
                   +   E   +       K  D     L  E+    PR
Sbjct: 290 SLDHHSMTLTPDEVKSLL-----LKYLDCRPQDLPREVLTTNPR 328

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.8 bits (97), Expect = 9e-05
 Identities = 26/194 (13%), Positives = 61/194 (31%), Gaps = 32/194 (16%)

Query: 18  LNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIAL 77
           ++++  +  + +  LR+    L         +V +FV        K      FL   I  
Sbjct: 51  IDHIIMSKDAVSGTLRL-FWTLLSKQ---EEMVQKFVEEVLRINYK------FLMSPIKT 100

Query: 78  QDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGS 137
           +           +     Y       Y    V    Y+++    + K +  + EL+    
Sbjct: 101 EQRQP-------SMMTRMYIEQRDRLYNDNQV-FAKYNVSRLQPYLKLRQALLELRPA-- 150

Query: 138 PDIV---MALVGNKADLHEKREVPAQDGIEYAEKNGMFFI-----ETSAKTADNINQLFE 189
            +++   +   G K  +    +V     ++      +F++      +     + + +L  
Sbjct: 151 KNVLIDGVLGSG-KTWV--ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY 207

Query: 190 EIAKRL-PRPSPSS 202
           +I      R   SS
Sbjct: 208 QIDPNWTSRSDHSS 221

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 218

 Score = 45.9 bits (109), Expect = 2e-06
 Identities = 23/136 (16%), Positives = 48/136 (35%), Gaps = 26/136 (19%)

Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           K+ +  +++ G    GK+ ++         PT  V+         ++  D       + D
Sbjct: 9   KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTV-VSQE------PLSAADYDGSGVTLVD 61

Query: 90  TAGQERYAALAPLYYRGAAVAV--VVYDITSPDSFN-------KAQY-----WVKELQKH 135
             G  +       Y +  A  V  +++ +   DS          A++      + E    
Sbjct: 62  FPGHVKLRYKLSDYLKTRAKFVKGLIFMV---DSTVDPKKLTTTAEFLVDILSITESSCE 118

Query: 136 GSPDIVMALVGNKADL 151
              DI++A   NK++L
Sbjct: 119 NGIDILIA--CNKSEL 132

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B* Length = 190

 Score = 44.9 bits (107), Expect = 3e-06
 Identities = 26/125 (20%), Positives = 46/125 (36%), Gaps = 19/125 (15%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
            KL+ LG    GK+ ++      +       T      S+ +A+     +KF  +D  G 
Sbjct: 24  GKLLFLGLDNAGKTTLLHMLKNDRLATLQP-TWH--PTSEELAIG---NIKFTTFDLGGH 77

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-------HGSPDIVMALVG 146
            +   L   Y+      V + D   P+ F++A+    EL            P +++    
Sbjct: 78  IQARRLWKDYFPEVNGIVFLVDAADPERFDEAR---VELDALFNIAELKDVPFVILG--- 131

Query: 147 NKADL 151
           NK D 
Sbjct: 132 NKIDA 136

>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* Length = 308

 Score = 44.0 bits (105), Expect = 1e-05
 Identities = 18/92 (19%), Positives = 36/92 (39%), Gaps = 7/92 (7%)

Query: 109 VAVVVYDITSPDSFNKAQYWV--KELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYA 166
             V+++ I + + +      +    ++    P I   +V NK D     +       E  
Sbjct: 93  ADVILFMIDATEGWRPRDEEIYQNFIKPLNKPVI---VVINKIDKIGPAKNVLPLIDEIH 149

Query: 167 EKNGMF--FIETSAKTADNINQLFEEIAKRLP 196
           +K+      +  SA    N+++L + I K LP
Sbjct: 150 KKHPELTEIVPISALKGANLDELVKTILKYLP 181

>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 Length = 172

 Score = 42.9 bits (102), Expect = 1e-05
 Identities = 27/126 (21%), Positives = 49/126 (38%), Gaps = 26/126 (20%)

Query: 83  VKFEIWDTAGQ------------ER-YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWV 129
           +   I DTAG             ER +  +       A   + + D T+ D+ + A+ W 
Sbjct: 52  MPLHIIDTAGLREASDEVERIGIERAWQEIE-----QADRVLFMVDGTTTDAVDPAEIW- 105

Query: 130 KELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE 189
            E        + + +V NKAD+  +    +       E NG   I  SA+T + ++ L  
Sbjct: 106 PEFIARLPAKLPITVVRNKADITGETLGMS-------EVNGHALIRLSARTGEGVDVLRN 158

Query: 190 EIAKRL 195
            + + +
Sbjct: 159 HLKQSM 164

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii} Length = 357

 Score = 43.7 bits (103), Expect = 1e-05
 Identities = 37/175 (21%), Positives = 72/175 (41%), Gaps = 25/175 (14%)

Query: 36  LVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIAL--QDSTTVKFEIWDTAG- 92
           +V+ G   VGKS ++      + +  S       F ++ I +   +    +++I DT G 
Sbjct: 170 VVIAGHPNVGKSTLLKALTTAKPEIASY-----PFTTRGINVGQFEDGYFRYQIIDTPGL 224

Query: 93  ----------QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGS--PDI 140
                      E+ A LA L Y G  +  +  D  S       +  +   ++      D+
Sbjct: 225 LDRPISERNEIEKQAILA-LRYLGNLIIYIF-DP-SEHCGFPLEEQIHLFEEVHGEFKDL 281

Query: 141 VMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
              +V NK D+ ++  +   +  ++ ++ G+  I+ SA     I+ + EEI K L
Sbjct: 282 PFLVVINKIDVADEENIKRLE--KFVKEKGLNPIKISALKGTGIDLVKEEIIKTL 334

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A* Length = 476

 Score = 43.7 bits (104), Expect = 1e-05
 Identities = 22/126 (17%), Positives = 40/126 (31%), Gaps = 23/126 (18%)

Query: 83  VKFEIWDTAGQ------------ER-YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWV 129
             F + DTAG              R    +A      A + + + D+ +    ++     
Sbjct: 281 TMFRLTDTAGLREAGEEIEHEGIRRSRMKMA-----EADLILYLLDLGTERLDDELTEI- 334

Query: 130 KELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE 189
           +EL+    P      V NK D     +   +   +         I  SA   D I+ L +
Sbjct: 335 RELKAA-HPAAKFLTVANKLDRAANADALIRAIADGTGTE---VIGISALNGDGIDTLKQ 390

Query: 190 EIAKRL 195
            +   +
Sbjct: 391 HMGDLV 396

>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 Length = 364

 Score = 43.0 bits (102), Expect = 3e-05
 Identities = 18/93 (19%), Positives = 31/93 (33%), Gaps = 6/93 (6%)

Query: 113 VYDITSPDSFNKAQYWV--KELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNG 170
           V D T  ++          + L++ G     + +  NK D          D +E   K  
Sbjct: 264 VIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGDLYKKLDLVEKLSKEL 323

Query: 171 MFF----IETSAKTADNINQLFEEIAKRLPRPS 199
                  I  SA    N+  L ++I +   + S
Sbjct: 324 YSPIFDVIPISALKRTNLELLRDKIYQLATQLS 356

>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 Length = 301

 Score = 41.3 bits (98), Expect = 8e-05
 Identities = 17/94 (18%), Positives = 31/94 (32%), Gaps = 7/94 (7%)

Query: 109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK 168
           V  VV+ +            V    K     + + LVGNK D  +  E    + ++   +
Sbjct: 87  VNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAAKYPE----EAMKAYHE 142

Query: 169 NGMF--FIETSAKTADNINQLFEEIAKRLPRPSP 200
                     SA     + +L  ++   +P   P
Sbjct: 143 LLPEAEPRMLSALDERQVAELKADLLALMP-EGP 175

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A* Length = 413

 Score = 40.8 bits (95), Expect = 1e-04
 Identities = 22/193 (11%), Positives = 46/193 (23%), Gaps = 28/193 (14%)

Query: 28  DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIA-LQDSTTVKFE 86
           +  +  + + + G++G GKS  +        +       G   ++      +        
Sbjct: 64  EIDSSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVV 123

Query: 87  IWDTAGQERYAALAPLYYRGAA---VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMA 143
            WD  G          Y            +    +    N      K +           
Sbjct: 124 FWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISATRFKKNDIDIA-KAISMMKKEFYF-- 180

Query: 144 LVGNKADLHEKREVPA---------------QDGIEYAEKNGM-----FFIETSAKTADN 183
            V  K D     E                   + +    +NG+     F +        +
Sbjct: 181 -VRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYD 239

Query: 184 INQLFEEIAKRLP 196
              L +++   LP
Sbjct: 240 FPVLMDKLISDLP 252

>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 Length = 190

 Score = 38.8 bits (91), Expect = 3e-04
 Identities = 26/120 (21%), Positives = 39/120 (32%), Gaps = 26/120 (21%)

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE----------LQKHGSPDIVMA 143
             +        +   VAV+V D  +     K      E          L++   P I   
Sbjct: 73  VHFIEDNA---KNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTI--- 126

Query: 144 LVGNKADLHEKREVPAQDGIEYAEKNGM-------FFIETSAKTADNINQLFEEIAKRLP 196
           +  NK D  +  +         AEK  +        FI  SAK  DNI +L   I + + 
Sbjct: 127 VAVNKLDKIKNVQEVIN---FLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIR 183

>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 Length = 301

 Score = 39.4 bits (93), Expect = 3e-04
 Identities = 19/92 (20%), Positives = 41/92 (44%), Gaps = 10/92 (10%)

Query: 109 VAVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADL-HEKREVPAQDGIEYA 166
           V +V++ +     +    +  + +L++  +P I   L  NK D   EK ++     +++ 
Sbjct: 89  VELVIF-VVEGTRWTPDDEMVLNKLREGKAPVI---LAVNKVDNVQEKADLLPH--LQFL 142

Query: 167 EKNGMF--FIETSAKTADNINQLFEEIAKRLP 196
                F   +  SA+T  N++ +   + K LP
Sbjct: 143 ASQMNFLDIVPISAETGLNVDTIAAIVRKHLP 174

>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* Length = 482

 Score = 39.5 bits (93), Expect = 4e-04
 Identities = 26/127 (20%), Positives = 46/127 (36%), Gaps = 28/127 (22%)

Query: 83  VKFEIWDTAGQ-------------ER-YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYW 128
           + F I DTAG              ER    +       A + + V D +SP      +  
Sbjct: 291 ILFRIVDTAGVRSETNDLVERLGIERTLQEIE-----KADIVLFVLDASSPLDEEDRKIL 345

Query: 129 VKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF 188
            + ++      +V   V NK D+ EK     ++ I+         ++ SA   + + +L 
Sbjct: 346 -ERIK--NKRYLV---VINKVDVVEKIN---EEEIKNKLGTDRHMVKISALKGEGLEKLE 396

Query: 189 EEIAKRL 195
           E I +  
Sbjct: 397 ESIYRET 403

>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} Length = 462

 Score = 39.4 bits (93), Expect = 5e-04
 Identities = 24/126 (19%), Positives = 49/126 (38%), Gaps = 28/126 (22%)

Query: 83  VKFEIWDTAGQ------------ER-YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWV 129
           +  ++ DTAG             ER   A        A + ++  D  +  +    + + 
Sbjct: 272 IPVQVLDTAGIRETSDQVEKIGVERSRQAAN-----TADLVLLTIDAATGWTTGDQEIY- 325

Query: 130 KELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE 189
           ++++    P I+   V NK DL EK+ + + +      +N    + T+A     I+ L  
Sbjct: 326 EQVK--HRPLIL---VMNKIDLVEKQLITSLE----YPENITQIVHTAAAQKQGIDSLET 376

Query: 190 EIAKRL 195
            I + +
Sbjct: 377 AILEIV 382

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	202
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	100.0
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	100.0
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	100.0
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	100.0
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	100.0
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	100.0
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	100.0
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	100.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	100.0
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	100.0
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	100.0
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	100.0
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	100.0
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	100.0
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	100.0
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	100.0
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	100.0
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	100.0
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	100.0
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	100.0
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	100.0
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	100.0
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	100.0
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	100.0
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	100.0
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	100.0
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	100.0
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	100.0
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	100.0
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	100.0
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	100.0
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	100.0
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	100.0
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	100.0
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	100.0
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	100.0
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	100.0
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	100.0
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	100.0
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	100.0
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	100.0
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	100.0
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	100.0
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	100.0
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	100.0
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	100.0
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	100.0
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	100.0
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	100.0
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	100.0
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	100.0
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	100.0
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	100.0
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	100.0
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	100.0
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	100.0
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	100.0
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	100.0
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	100.0
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	100.0
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	100.0
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	100.0
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	100.0
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	100.0
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	100.0
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	100.0
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.98
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.98
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.98
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.98
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.98
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.98
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.98
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.98
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.97
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.97
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.97
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.97
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.97
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.97
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.97
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.97
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.97
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.97
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.97
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.97
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.97
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.97
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.97
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.97
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.96
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.96
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.96
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.96
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.96
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.93
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.96
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.96
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.96
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.95
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.95
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.95
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.95
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.95
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.95
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.95
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.95
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.94
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.94
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.94
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.94
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.94
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.93
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.93
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.93
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.93
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.93
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.92
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.92
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.92
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.92
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.91
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.91
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.91
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.91
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.91
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.91
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.9
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.9
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.9
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.9
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.9
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.9
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.9
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.89
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.89
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.89
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.88
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.88
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.88
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.88
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.88
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.88
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.87
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.87
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.87
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.87
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.87
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.87
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.86
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.86
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.86
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.86
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.85
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.85
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.85
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.85
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.85
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.84
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.84
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.84
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.84
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.84
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.83
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.83
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.83
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.83
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.83
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.82
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.82
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.81
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.8
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.8
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.79
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.79
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.79
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.78
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.78
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.77
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.76
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.76
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.76
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.75
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.75
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.75
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.73
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.71
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.71
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.7
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.7
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.66
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.66
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.64
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.63
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.61
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.61
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.61
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.58
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.56
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.54
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.54
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.54
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.53
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.52
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.51
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.45
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.44
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.35
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	99.24
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.24
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.21
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.99
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.96
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.91
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.9
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.89
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.84
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.82
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.82
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.76
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.49
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.46
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.4
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	98.39
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.32
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.32
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.27
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.19
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	98.15
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.04
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	97.96
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.82
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.81
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.43
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.33
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.32
2xxa_A	433	Signal recognition particle protein; protein trans	97.32
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.25
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.16
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.15
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.14
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.12
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.1
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.09
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.08
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.07
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.06
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.04
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.03
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.0
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.99
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.96
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.95
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.95
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.94
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.93
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.93
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.92
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.92
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.91
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.91
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.89
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.89
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.86
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.86
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.85
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.85
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.84
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.84
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.83
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.82
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.8
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.79
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.78
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.78
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.78
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.78
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.78
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.77
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.77
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.77
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.77
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.76
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.76
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.74
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.74
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.74
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.73
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.73
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.73
1g6h_A	257	High-affinity branched-chain amino acid transport	96.73
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.72
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.72
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.72
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.72
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.71
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.71
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.71
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.71
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.71
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.7
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.69
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.69
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.69
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.69
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.69
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.67
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.67
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.66
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.66
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.66
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.65
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.64
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.64
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.64
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.63
3co5_A	143	Putative two-component system transcriptional RES	96.63
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	96.63
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.63
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.63
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.62
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.62
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.62
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.61
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.61
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.61
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.61
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	96.6
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.6
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.6
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.59
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.59
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.58
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.57
1via_A	175	Shikimate kinase; structural genomics, transferase	96.55
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.54
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.54
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.54
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.54
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	96.51
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.51
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.51
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.5
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.49
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.49
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.49
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.49
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.49
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.49
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.48
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.48
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.47
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.45
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.44
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.44
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.44
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.43
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.42
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.41
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.4
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.4
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.39
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.39
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.39
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.39
3uc9_A	233	Increased recombination centers protein 6; rossman	96.38
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.38
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.37
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.37
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.37
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.35
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.34
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.34
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.33
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.33
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.31
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.31
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.3
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.3
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.3
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.3
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.29
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.28
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.27
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.26
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.24
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.23
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.23
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.23
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.23
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.22
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	96.22
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.22
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.21
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.2
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.2
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.2
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.2
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.17
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.16
3bos_A	242	Putative DNA replication factor; P-loop containing	96.14
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.13
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.11
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.09
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.07
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.06
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.06
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.05
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.05
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.04
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.04
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.03
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	96.03
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.03
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.98
2og2_A	359	Putative signal recognition particle receptor; nuc	95.97
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.96
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	95.95
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.94
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.92
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.91
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	95.84
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	95.81
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	95.8
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.79
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	95.78
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	95.76
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	95.74
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	95.73
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	95.72
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.72
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.72
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	95.69
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.67
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.66
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.64
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.63
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.6
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.54
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.52
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	95.51
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.5
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	95.49
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.48
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.47
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.45
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	95.44
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	95.42
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.42
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	95.41
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	95.41
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.39
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.39
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.39
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.39
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.38
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	95.37
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.36
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	95.33
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.32
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.3
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	95.27
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.26
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	95.25
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.23
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.23
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.23
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.22
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	95.2
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.18
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.15
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	95.14
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.14
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.13
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.11
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.05
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	95.03
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.02
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.01
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.01
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	94.99
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	94.99
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	94.99
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	94.98
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	94.97
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	94.94
2qgz_A	308	Helicase loader, putative primosome component; str	94.93
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	94.93
3cwq_A	209	Para family chromosome partitioning protein; alpha	94.93
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	94.91
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	94.91
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	94.89
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	94.87
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	94.86
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	94.85
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.84
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	94.82
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	94.82
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	94.81

>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=5.4e-39  Score=235.53  Aligned_cols=167  Identities=43%  Similarity=0.767  Sum_probs=142.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.+||+|+|.+|||||||+++|..+.+...+.++.+.++..+.+...+ ..+.+++|||+|+++|..++..+++.+|++
T Consensus        11 ~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~-~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~   89 (216)
T 4dkx_A           11 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLED-RTIRLQLWDTAGLERFRSLIPSYIRDSAAA   89 (216)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSS-CEEEEEEECCSCTTTCGGGHHHHHTTCSEE
T ss_pred             CCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecc-eEEEEEEEECCCchhhhhHHHHHhccccEE
Confidence            4579999999999999999999999999888888888888777766654 459999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      ++|||++++.+|..+..|+..+.....+++|++||+||+|+.+.+.+..+++..+++.+++.|+++||++|.||+++|+.
T Consensus        90 ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAktg~nV~e~F~~  169 (216)
T 4dkx_A           90 VVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRR  169 (216)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHH
T ss_pred             EEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCCCCcCHHHHHHH
Confidence            99999999999999999999998877788999999999999888889999999999999999999999999999999999


Q ss_pred             HHHHcCCC
Q 028884          191 IAKRLPRP  198 (202)
Q Consensus       191 l~~~i~~~  198 (202)
                      |++.+...
T Consensus       170 i~~~i~~~  177 (216)
T 4dkx_A          170 VAAALPGM  177 (216)
T ss_dssp             HHHHC---
T ss_pred             HHHHHHhh
Confidence            99988654

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=100.00  E-value=7.2e-34  Score=202.73  Aligned_cols=170  Identities=60%  Similarity=1.017  Sum_probs=148.6

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ..+.++|+|+|.+|+|||||+++|.+..+.....++.+.......+.+.+ ..+.+.+||+||++.+...+..+++.+|+
T Consensus         9 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   87 (181)
T 2efe_B            9 KSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVND-ATVKFEIWDTAGQERYHSLAPMYYRGAAA   87 (181)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETT-EEEEEEEEECCCSGGGGGGTHHHHTTCSE
T ss_pred             CccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECC-EEEEEEEEeCCCChhhhhhhHHHhccCCE
Confidence            35679999999999999999999999988777777777766666665543 34899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|+|||++++.++..+..|+..+.....++.|+++|+||+|+.+...+..++...++...+++++++||+++.|++++|+
T Consensus        88 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  167 (181)
T 2efe_B           88 AIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFY  167 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCSSSCTTHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHH
Confidence            99999999999999999999999887777899999999999987777788889999999999999999999999999999


Q ss_pred             HHHHHcCCCCC
Q 028884          190 EIAKRLPRPSP  200 (202)
Q Consensus       190 ~l~~~i~~~~~  200 (202)
                      +|.+.+.+.+.
T Consensus       168 ~l~~~~~~~~~  178 (181)
T 2efe_B          168 EIARRLPRVQP  178 (181)
T ss_dssp             HHHHTCC----
T ss_pred             HHHHHHHhcCC
Confidence            99999987654

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=100.00  E-value=3.2e-34  Score=204.03  Aligned_cols=168  Identities=39%  Similarity=0.740  Sum_probs=148.0

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ..++.++|+|+|.+|+|||||+++|.+..+...+.++.+.+.....+... +..+.+.+||+||++.+...+..+++.+|
T Consensus        11 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   89 (179)
T 1z0f_A           11 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVS-GQKIKLQIWDTAGQERFRAVTRSYYRGAA   89 (179)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEET-TEEEEEEEEECTTGGGTCHHHHHHHHTCS
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEEC-CeEEEEEEEECCCChHhhhhHHHHhccCC
Confidence            34568999999999999999999999988877666776666666665554 44489999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      ++|+|||++++.++..+..|+..+......+.|+++|+||+|+.+...+..++..+++...+++++++||+++.|++++|
T Consensus        90 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  169 (179)
T 1z0f_A           90 GALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAF  169 (179)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHH
T ss_pred             EEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            99999999999999999999999888777789999999999997766777888999999999999999999999999999


Q ss_pred             HHHHHHcCC
Q 028884          189 EEIAKRLPR  197 (202)
Q Consensus       189 ~~l~~~i~~  197 (202)
                      ++|++.+.+
T Consensus       170 ~~l~~~i~~  178 (179)
T 1z0f_A          170 LEAAKKIYQ  178 (179)
T ss_dssp             HHHHHHHC-
T ss_pred             HHHHHHHhh
Confidence            999998865

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=100.00  E-value=9.6e-35  Score=211.18  Aligned_cols=171  Identities=40%  Similarity=0.673  Sum_probs=142.1

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGA  107 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~  107 (202)
                      ...++.++|+|+|.+|+|||||+++|.++.+...+.++.+.++....+.+. +..+.+.+||+||++.+..++..+++.+
T Consensus        24 ~~~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~~  102 (201)
T 2hup_A           24 EQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQ-GKRVKLQIWDTAGQERFRTITQSYYRSA  102 (201)
T ss_dssp             --CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEET-TEEEEEEEECCTTCGGGHHHHHHHHTTC
T ss_pred             cccccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEEC-CEEEEEEEEECCCcHhHHHHHHHHHhhC
Confidence            444678999999999999999999999988876666776666666666654 4448999999999999999999999999


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC-eEEEeccCCCCCHHH
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM-FFIETSAKTADNINQ  186 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~s~~~~~~i~~  186 (202)
                      |++|+|||++++.+++.+..|+..+......+.|++||+||+|+.+.+.+..+++..++...++ +++++||+++.|+++
T Consensus       103 d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~  182 (201)
T 2hup_A          103 NGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEE  182 (201)
T ss_dssp             SEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBTTTTBSHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeCCCCCCHHH
Confidence            9999999999999999999999999887667899999999999987667778889999999999 999999999999999


Q ss_pred             HHHHHHHHcCCCC
Q 028884          187 LFEEIAKRLPRPS  199 (202)
Q Consensus       187 ~~~~l~~~i~~~~  199 (202)
                      +|++|++.+.++.
T Consensus       183 l~~~l~~~i~~~~  195 (201)
T 2hup_A          183 AFLRVATELIMRH  195 (201)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999886543

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=100.00  E-value=7e-34  Score=204.90  Aligned_cols=169  Identities=40%  Similarity=0.788  Sum_probs=145.4

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGA  107 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~  107 (202)
                      ....+.++|+|+|.+|+|||||+++|.++.+...+.++.+.++....+... +..+.+.+||+||++.+..++..+++.+
T Consensus        16 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   94 (191)
T 2a5j_A           16 PRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNID-GKQIKLQIWDTAGQESFRSITRSYYRGA   94 (191)
T ss_dssp             CTTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEET-TEEEEEEEECCTTGGGTSCCCHHHHTTC
T ss_pred             cccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEEC-CEEEEEEEEECCCchhhhhhHHHHhccC
Confidence            334568999999999999999999999998877777777776666666654 4448999999999999999999999999


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQL  187 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~  187 (202)
                      |++|+|||++++.++..+..|+..+......+.|+++|+||+|+.+...+..++...++...+++++++||+++.|++++
T Consensus        95 d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (191)
T 2a5j_A           95 AGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEA  174 (191)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            99999999999999999999999998876778999999999999776677788889999999999999999999999999


Q ss_pred             HHHHHHHcCC
Q 028884          188 FEEIAKRLPR  197 (202)
Q Consensus       188 ~~~l~~~i~~  197 (202)
                      |++|++.+.+
T Consensus       175 ~~~l~~~i~~  184 (191)
T 2a5j_A          175 FINTAKEIYR  184 (191)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988754

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=100.00  E-value=7.9e-34  Score=204.25  Aligned_cols=167  Identities=38%  Similarity=0.668  Sum_probs=147.1

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      .++.++|+|+|.+|+|||||+++|.++.+...+.++.+.++....+... +..+.+.+||+||++.+...+..+++.+|+
T Consensus        19 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   97 (189)
T 2gf9_A           19 SDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRH-DKRIKLQIWDTAGQERYRTITTAYYRGAMG   97 (189)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEET-TEEEEEEEEECCSCCSSCCSGGGGGTTCSE
T ss_pred             cCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEEC-CeEEEEEEEeCCCcHHHhhhHHHhccCCCE
Confidence            3568999999999999999999999998877777777766665555554 344899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|+|||++++.++..+..|+..+......+.|+++|+||+|+.+...+..++...++...+++++++||+++.|++++|+
T Consensus        98 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  177 (189)
T 2gf9_A           98 FLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFE  177 (189)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999999999998887667899999999999987677778888999999999999999999999999999


Q ss_pred             HHHHHcCC
Q 028884          190 EIAKRLPR  197 (202)
Q Consensus       190 ~l~~~i~~  197 (202)
                      +|++.+.+
T Consensus       178 ~l~~~i~~  185 (189)
T 2gf9_A          178 RLVDVICE  185 (189)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988754

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=100.00  E-value=1.1e-33  Score=199.45  Aligned_cols=166  Identities=61%  Similarity=0.995  Sum_probs=147.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|.+|+|||||+++|.++.+.....++.+.......+.+.+ ..+.+.+||+||++.+...+..+++.+|++
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~   82 (170)
T 1r2q_A            4 ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDD-TTVKFEIWDTAGQERYHSLAPMYYRGAQAA   82 (170)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETT-EEEEEEEEEECCSGGGGGGHHHHHTTCSEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECC-EEEEEEEEeCCCcHHhhhhhHHhccCCCEE
Confidence            4579999999999999999999999888777777777777666666543 348999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |+|||++++.++..+..|+..+.....++.|+++|+||+|+.....+..++...++...+++++++||++|.|++++|++
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~  162 (170)
T 1r2q_A           83 IVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMA  162 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999988876778999999999998776677778888999999999999999999999999999


Q ss_pred             HHHHcCC
Q 028884          191 IAKRLPR  197 (202)
Q Consensus       191 l~~~i~~  197 (202)
                      |.+.+.+
T Consensus       163 i~~~~~~  169 (170)
T 1r2q_A          163 IAKKLPK  169 (170)
T ss_dssp             HHHTSCC
T ss_pred             HHHHHhh
Confidence            9998865

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=4.5e-35  Score=211.13  Aligned_cols=170  Identities=37%  Similarity=0.636  Sum_probs=152.0

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      .+..+||+|+|.+|+|||||+++|.++.+.....++.+.......+...+.. +.+.+||+||++.+..++..+++.+|+
T Consensus        20 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~d~   98 (191)
T 3dz8_A           20 FDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKR-VKLQIWDTAGQERYRTITTAYYRGAMG   98 (191)
T ss_dssp             EEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTT-EEEEEECHHHHHHCHHHHHHHHTTCCE
T ss_pred             cCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEE-EEEEEEeCCChHHHHHHHHHHHccCCE
Confidence            4578999999999999999999999988877777777777777776665555 899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|+|||++++.++..+..|+..+......+.|+++|+||+|+.+...+..++...++...+++++++||++|.|++++|+
T Consensus        99 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  178 (191)
T 3dz8_A           99 FILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFE  178 (191)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999999999999887777899999999999987778888889999999999999999999999999999


Q ss_pred             HHHHHcCCCCC
Q 028884          190 EIAKRLPRPSP  200 (202)
Q Consensus       190 ~l~~~i~~~~~  200 (202)
                      +|++.+.++..
T Consensus       179 ~l~~~i~~~~~  189 (191)
T 3dz8_A          179 RLVDAICDKMS  189 (191)
T ss_dssp             HHHHHHHHHC-
T ss_pred             HHHHHHHHhcc
Confidence            99998865543

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=100.00  E-value=7.3e-34  Score=200.65  Aligned_cols=167  Identities=44%  Similarity=0.750  Sum_probs=140.5

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      .++.++|+|+|.+|+|||||+++|.++.+.....++.+.+.....+.+. +..+.+.+||+||++.+...+..+++.+|+
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~   81 (170)
T 1z08_A            3 RAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIG-GKRVNLAIWDTAGQERFHALGPIYYRDSNG   81 (170)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESS-SCEEEEEEEECCCC-------CCSSTTCSE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEEC-CEEEEEEEEECCCcHhhhhhHHHHhccCCE
Confidence            3568999999999999999999999988877777777776666666654 445899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +++|+|++++.++..+..|+..+......+.|+++|+||+|+.+...+..++...++...+++++++||+++.|++++|+
T Consensus        82 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  161 (170)
T 1z08_A           82 AILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFL  161 (170)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHH
Confidence            99999999999999999999988776556899999999999987777788889999999999999999999999999999


Q ss_pred             HHHHHcCC
Q 028884          190 EIAKRLPR  197 (202)
Q Consensus       190 ~l~~~i~~  197 (202)
                      +|.+.+.+
T Consensus       162 ~l~~~~~~  169 (170)
T 1z08_A          162 DLCKRMIE  169 (170)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHhh
Confidence            99998764

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=100.00  E-value=9.9e-34  Score=204.55  Aligned_cols=168  Identities=42%  Similarity=0.735  Sum_probs=151.9

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      .+..++|+|+|.+|+|||||+++|.++.+...+.++.+.+.....+.+.+ ..+.+.+||+||++.+...+..+++.+|+
T Consensus        13 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   91 (196)
T 3tkl_A           13 YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDG-KTIKLQIWDTAGQERFRTITSSYYRGAHG   91 (196)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETT-EEEEEEEEEECCSGGGCTTHHHHHTTCSE
T ss_pred             cccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECC-EEEEEEEEECCCcHhhhhhHHHHHhhCCE
Confidence            35789999999999999999999999988887778887777777776644 44889999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|+|||++++.++..+..|+..+......+.|+++|+||+|+.....+...+...++...+++++++||+++.|++++|+
T Consensus        92 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~  171 (196)
T 3tkl_A           92 IIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFM  171 (196)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEEECTTTCTTHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999999888777899999999999988888888899999999999999999999999999999


Q ss_pred             HHHHHcCCC
Q 028884          190 EIAKRLPRP  198 (202)
Q Consensus       190 ~l~~~i~~~  198 (202)
                      +|++.+.++
T Consensus       172 ~l~~~i~~~  180 (196)
T 3tkl_A          172 TMAAEIKKR  180 (196)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999987654

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=100.00  E-value=2.5e-33  Score=197.80  Aligned_cols=166  Identities=52%  Similarity=0.903  Sum_probs=148.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|.+|+|||||+++|.+..+.....++.+.......+...+ ..+.+.+||+||.+.+...+..+++.+|++
T Consensus         4 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~   82 (170)
T 1z0j_A            4 LRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQN-ELHKFLIWDTAGLERFRALAPMYYRGSAAA   82 (170)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETT-EEEEEEEEEECCSGGGGGGTHHHHTTCSEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECC-eEEEEEEEcCCCchhhhcccHhhCcCCCEE
Confidence            4679999999999999999999999988777777777776666666543 448899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |+|||++++.++..+..|+..+.....+..|+++|+||+|+.+...+..++...++...+++++++||+++.|++++|++
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  162 (170)
T 1z0j_A           83 IIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIE  162 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHH
Confidence            99999999999999999999998877788999999999999877777788888999999999999999999999999999


Q ss_pred             HHHHcCC
Q 028884          191 IAKRLPR  197 (202)
Q Consensus       191 l~~~i~~  197 (202)
                      |.+.+.+
T Consensus       163 i~~~i~~  169 (170)
T 1z0j_A          163 ISRRIPS  169 (170)
T ss_dssp             HHHHCCC
T ss_pred             HHHHHhc
Confidence            9998864

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=100.00  E-value=1.6e-33  Score=198.75  Aligned_cols=166  Identities=54%  Similarity=0.907  Sum_probs=146.3

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.++|+|+|.+|+|||||+++|.++.+.....++.+.+.....+.+. +..+.+.+||+||++.+...+..+++.+|+++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i   80 (170)
T 1ek0_A            2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTIN-EHTVKFEIWDTAGQERFASLAPXYYRNAQAAL   80 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEET-TEEEEEEEEEECCSGGGGGGHHHHHTTCSEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEEC-CEEEEEEEEECCCChhhhhhhhhhhccCcEEE
Confidence            46899999999999999999999988877777777777666666654 44589999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC---CCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK---REVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~---~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      +|+|++++.++..+..|+..+......+.|+++|+||+|+.+.   ..+..++...++...+++++++||+++.|++++|
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  160 (170)
T 1ek0_A           81 VVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVF  160 (170)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHH
T ss_pred             EEEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            9999999999999999999988876778999999999998655   5677788888888899999999999999999999


Q ss_pred             HHHHHHcCCC
Q 028884          189 EEIAKRLPRP  198 (202)
Q Consensus       189 ~~l~~~i~~~  198 (202)
                      ++|.+.+.++
T Consensus       161 ~~l~~~i~~k  170 (170)
T 1ek0_A          161 LGIGEKIPLK  170 (170)
T ss_dssp             HHHHTTSCCC
T ss_pred             HHHHHHHhhC
Confidence            9999988653

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=100.00  E-value=6.6e-34  Score=203.44  Aligned_cols=166  Identities=40%  Similarity=0.747  Sum_probs=119.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++.++|+|+|.+|+|||||+++|.++.+...+.++.+.++....+.+. +..+.+.+||+||++.+...+..+++.+|++
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   84 (183)
T 2fu5_C            6 DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELD-GKRIKLQIWDTAGQERFRTITTAYYRGAMGI   84 (183)
T ss_dssp             SEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEET-TEEEEEEEEEC---------CCTTTTTCSEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEEC-CEEEEEEEEcCCCChhhhhhHHHHHhcCCEE
Confidence            568999999999999999999999888776667777766666666653 4458999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |+|||++++.++..+..|+..+......+.|+++|+||+|+.+...+..++...++...+++++++||+++.|++++|++
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  164 (183)
T 2fu5_C           85 MLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFT  164 (183)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999988876678999999999999877777888889999999999999999999999999999


Q ss_pred             HHHHcCC
Q 028884          191 IAKRLPR  197 (202)
Q Consensus       191 l~~~i~~  197 (202)
                      |.+.+.+
T Consensus       165 l~~~i~~  171 (183)
T 2fu5_C          165 LARDIKA  171 (183)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9987753

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=100.00  E-value=9e-34  Score=202.74  Aligned_cols=169  Identities=30%  Similarity=0.472  Sum_probs=145.9

Q ss_pred             CCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccC
Q 028884           27 SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRG  106 (202)
Q Consensus        27 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~  106 (202)
                      .....+.++|+|+|.+|+|||||+++|.++.+...+.++....+ ...... ++..+.+.+||+||++.+..++..+++.
T Consensus        12 ~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~   89 (183)
T 3kkq_A           12 PSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEI-DNQWAILDVLDTAGQEEFSAMREQYMRT   89 (183)
T ss_dssp             --CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCSCGGGCSSHHHHHHH
T ss_pred             CccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEe-CCcEEEEEEEECCCchhhHHHHHHHHhc
Confidence            34456789999999999999999999999887777776666555 444444 4555889999999999999999999999


Q ss_pred             ccEEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccC-CCCCH
Q 028884          107 AAVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAK-TADNI  184 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~-~~~~i  184 (202)
                      +|++|+|||++++.++..+..|+..+... ...++|+++|+||+|+.+...+..++...++...+++++++||+ ++.|+
T Consensus        90 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~v  169 (183)
T 3kkq_A           90 GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNV  169 (183)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHHHHhCCeEEEeccCCCCCCH
Confidence            99999999999999999999999888653 55689999999999998888888899999999999999999999 99999


Q ss_pred             HHHHHHHHHHcCC
Q 028884          185 NQLFEEIAKRLPR  197 (202)
Q Consensus       185 ~~~~~~l~~~i~~  197 (202)
                      +++|++|.+.+.+
T Consensus       170 ~~l~~~l~~~i~~  182 (183)
T 3kkq_A          170 DKTFHDLVRVIRQ  182 (183)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999988754

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=2.5e-33  Score=199.77  Aligned_cols=172  Identities=41%  Similarity=0.704  Sum_probs=139.7

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccC
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRG  106 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~  106 (202)
                      ...++.++|+|+|.+|+|||||+++|.++.+.. .+.++.+.++....+.. ++..+.+.+||+||++.+...+..+++.
T Consensus         5 ~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~~~Dt~G~~~~~~~~~~~~~~   83 (180)
T 2g6b_A            5 DFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDV-DGVKVKLQMWDTAGQERFRSVTHAYYRD   83 (180)
T ss_dssp             CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEE-TTEEEEEEEEECCCC--------CCGGG
T ss_pred             ccCCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEE-CCEEEEEEEEeCCCcHHHHHHHHHHccC
Confidence            344678999999999999999999999988743 44566666665555555 4445899999999999999999999999


Q ss_pred             ccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 028884          107 AAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQ  186 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~  186 (202)
                      +|++|+|+|++++.++..+..|+..+......+.|+++|+||+|+.....+..++...++...+++++++||+++.|+++
T Consensus        84 ~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  163 (180)
T 2g6b_A           84 AHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDL  163 (180)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHH
Confidence            99999999999999999999999998887667899999999999988777788888889999999999999999999999


Q ss_pred             HHHHHHHHcCCCCC
Q 028884          187 LFEEIAKRLPRPSP  200 (202)
Q Consensus       187 ~~~~l~~~i~~~~~  200 (202)
                      +|++|.+.+.+++.
T Consensus       164 l~~~l~~~~~~~~~  177 (180)
T 2g6b_A          164 AFTAIAKELKRRSM  177 (180)
T ss_dssp             HHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999876543

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.3e-33  Score=205.19  Aligned_cols=168  Identities=42%  Similarity=0.788  Sum_probs=149.1

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ..++.++|+|+|.+|+|||||+++|.++.+.....++.+.++....+.+. +..+.+.+||+||.+.+..++..+++.+|
T Consensus        22 ~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d  100 (201)
T 2ew1_A           22 DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIN-GEKVKLQIWDTAGQERFRSITQSYYRSAN  100 (201)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEET-TEEEEEEEEEECCSGGGHHHHGGGSTTCS
T ss_pred             ccccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEEC-CEEEEEEEEECCCcHHHHHHHHHHHhcCC
Confidence            34678999999999999999999999998877777777777766666664 44489999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      ++|+|||++++.++..+..|+..+......+.|+++|+||+|+.+...+..++...++...+++++++||++|.|++++|
T Consensus       101 ~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~  180 (201)
T 2ew1_A          101 ALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLF  180 (201)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            99999999999999999999999988766789999999999997766777888888888899999999999999999999


Q ss_pred             HHHHHHcCC
Q 028884          189 EEIAKRLPR  197 (202)
Q Consensus       189 ~~l~~~i~~  197 (202)
                      ++|++.+.+
T Consensus       181 ~~l~~~i~~  189 (201)
T 2ew1_A          181 LDLACRLIS  189 (201)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999887754

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.6e-33  Score=203.19  Aligned_cols=170  Identities=54%  Similarity=0.880  Sum_probs=147.9

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      .++.++|+|+|.+|+|||||+++|.+..+.....++.+.......+...+ ..+.+.+||+||.+.+...+..+++.+|+
T Consensus        20 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   98 (192)
T 2fg5_A           20 AIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGN-ELHKFLIWDTAGQERFHSLAPMYYRGSAA   98 (192)
T ss_dssp             -CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSS-SEEEEEEEEECCSGGGGGGTHHHHTTCSE
T ss_pred             cCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCC-EEEEEEEEcCCCchhhHhhhHHhhccCCE
Confidence            45689999999999999999999999887766777777776666665543 44899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|+|||++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++...+++++++||+++.|++++|+
T Consensus        99 iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  178 (192)
T 2fg5_A           99 AVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQ  178 (192)
T ss_dssp             EEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTTTTBSHHHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHH
Confidence            99999999999999999999999887667899999999999976667778889999999999999999999999999999


Q ss_pred             HHHHHcCCCCC
Q 028884          190 EIAKRLPRPSP  200 (202)
Q Consensus       190 ~l~~~i~~~~~  200 (202)
                      +|.+.+.+..+
T Consensus       179 ~l~~~i~~~~~  189 (192)
T 2fg5_A          179 GISRQIPPLDP  189 (192)
T ss_dssp             HHHHTCC----
T ss_pred             HHHHHHHhhCC
Confidence            99999876643

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.5e-33  Score=207.94  Aligned_cols=170  Identities=39%  Similarity=0.756  Sum_probs=142.5

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ..+..++|+|+|.+|+|||||+++|.+..+...+.++.+.++....+.+. +..+.+.+||+||++.+..++..+++.+|
T Consensus         9 ~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   87 (223)
T 3cpj_B            9 DYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIE-GKRIKAQIWDTAGQERYRAITSAYYRGAV   87 (223)
T ss_dssp             -CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEET-TEEEEEEEECCTTTTTTTCCCGGGTTTCC
T ss_pred             CCCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEEC-CEEEEEEEEECCCccchhhhHHHHhccCC
Confidence            34678999999999999999999999998877777777777766666654 44489999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      ++|+|||++++.++..+..|+..+......++|++||+||+|+.....+..++...++...+++++++||+++.|++++|
T Consensus        88 ~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  167 (223)
T 3cpj_B           88 GALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAF  167 (223)
T ss_dssp             EEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGCCSCHHHHHHHHHHTTCEEEECCCC-CCCHHHHH
T ss_pred             EEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            99999999999999999999999987766789999999999998766777888889999999999999999999999999


Q ss_pred             HHHHHHcCCCC
Q 028884          189 EEIAKRLPRPS  199 (202)
Q Consensus       189 ~~l~~~i~~~~  199 (202)
                      ++|++.+.+..
T Consensus       168 ~~l~~~i~~~~  178 (223)
T 3cpj_B          168 EELINTIYQKV  178 (223)
T ss_dssp             HHHHHHHTTCC
T ss_pred             HHHHHHHHHHh
Confidence            99999987654

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=100.00  E-value=2.7e-33  Score=200.64  Aligned_cols=167  Identities=38%  Similarity=0.709  Sum_probs=148.0

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      .++.++|+|+|.+|+|||||+++|.+..+...+.++.+.+.....+... +..+.+.+||+||++.+...+..+++.+|+
T Consensus         7 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   85 (186)
T 2bme_A            7 YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVG-GKYVKLQIWDTAGQERFRSVTRSYYRGAAG   85 (186)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEET-TEEEEEEEEEECCSGGGHHHHHTTSTTCSE
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEEC-CEEEEEEEEeCCCcHHHHHHHHHHHhcCCE
Confidence            4568999999999999999999999998877777777766666666554 444799999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|+|||++++.++..+..|+..+......+.|+++|+||+|+.....+...+...++...+++++++||+++.|++++|+
T Consensus        86 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  165 (186)
T 2bme_A           86 ALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFV  165 (186)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHH
Confidence            99999999999999999999988877667899999999999977667778888899999999999999999999999999


Q ss_pred             HHHHHcCC
Q 028884          190 EIAKRLPR  197 (202)
Q Consensus       190 ~l~~~i~~  197 (202)
                      +|++.+.+
T Consensus       166 ~l~~~~~~  173 (186)
T 2bme_A          166 QCARKILN  173 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988754

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=100.00  E-value=6.8e-33  Score=201.92  Aligned_cols=167  Identities=40%  Similarity=0.725  Sum_probs=149.1

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      .++.++|+|+|.+|+|||||+++|.+..+...+.++.+.++....+.+. +..+.+.+||+||++.+...+..+++.+|+
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (206)
T 2bcg_Y            5 YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELD-GKTVKLQIWDTAGQERFRTITSSYYRGSHG   83 (206)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEET-TEEEEEEEECCTTTTTTTCCCGGGGTTCSE
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEEC-CEEEEEEEEeCCChHHHHHHHHHhccCCCE
Confidence            4568999999999999999999999998877777777777766666654 444899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|+|||++++.++..+..|+..+......+.|+++|+||+|+.....+..++...++...+++++++||++|.|++++|+
T Consensus        84 vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  163 (206)
T 2bcg_Y           84 IIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFL  163 (206)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999999887667899999999999987777788888899999999999999999999999999


Q ss_pred             HHHHHcCC
Q 028884          190 EIAKRLPR  197 (202)
Q Consensus       190 ~l~~~i~~  197 (202)
                      +|.+.+.+
T Consensus       164 ~l~~~i~~  171 (206)
T 2bcg_Y          164 TMARQIKE  171 (206)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988754

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=100.00  E-value=1.9e-33  Score=202.80  Aligned_cols=169  Identities=43%  Similarity=0.764  Sum_probs=148.5

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGA  107 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~  107 (202)
                      ...++.++|+|+|.+|+|||||+++|.+..+...+.++.+..+....+... +..+.+.+||+||.+.+...+..+++.+
T Consensus        20 ~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   98 (193)
T 2oil_A           20 EDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLG-TAAVKAQIWDTAGLERYRAITSAYYRGA   98 (193)
T ss_dssp             CCCSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEET-TEEEEEEEEEESCCCTTCTTHHHHHTTC
T ss_pred             cccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEEC-CEEEEEEEEeCCCchhhhhhhHHHhccC
Confidence            445678999999999999999999999998877777777776666666554 4448999999999999999999999999


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQL  187 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~  187 (202)
                      |++|+|||++++.++..+..|+..+......+.|+++|+||+|+.....+..++...++...+++++++||+++.|++++
T Consensus        99 d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  178 (193)
T 2oil_A           99 VGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELA  178 (193)
T ss_dssp             CEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            99999999999999999999999988776678999999999999776677788888999999999999999999999999


Q ss_pred             HHHHHHHcCC
Q 028884          188 FEEIAKRLPR  197 (202)
Q Consensus       188 ~~~l~~~i~~  197 (202)
                      |++|.+.+.+
T Consensus       179 ~~~l~~~i~~  188 (193)
T 2oil_A          179 FETVLKEIFA  188 (193)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999987754

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=100.00  E-value=4e-33  Score=198.68  Aligned_cols=167  Identities=38%  Similarity=0.689  Sum_probs=145.9

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ..++.++|+|+|.+|+|||||+++|.+..+...+.++.+.+.....+.+. +..+.+.+||+||++.+...+..+++.+|
T Consensus         5 ~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   83 (181)
T 3tw8_B            5 DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEIN-GEKVKLQIWDTAGQERFRTITSTYYRGTH   83 (181)
T ss_dssp             -CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEET-TEEEEEEEEEETTGGGCSSCCGGGGTTCS
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEEC-CEEEEEEEEcCCCchhhhhhHHHHhccCC
Confidence            34578999999999999999999999988877777777777766666664 44489999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      ++|+|||++++.++..+..|+..+... .++.|+++|+||+|+.+...+...+...++...+++++++||++|.|++++|
T Consensus        84 ~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  162 (181)
T 3tw8_B           84 GVIVVYDVTSAESFVNVKRWLHEINQN-CDDVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMF  162 (181)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHH-CTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHh-CCCCCEEEEEECCCCchhcccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHH
Confidence            999999999999999999999998776 4579999999999998877788888999999999999999999999999999


Q ss_pred             HHHHHHcCC
Q 028884          189 EEIAKRLPR  197 (202)
Q Consensus       189 ~~l~~~i~~  197 (202)
                      ++|.+.+.+
T Consensus       163 ~~l~~~~~~  171 (181)
T 3tw8_B          163 NCITELVLR  171 (181)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988754

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=100.00  E-value=2.1e-33  Score=198.21  Aligned_cols=166  Identities=42%  Similarity=0.770  Sum_probs=140.5

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      ..++|+|+|.+|+|||||+++|.+..+.....++.+.+.....+... +..+.+.+||+||++.+...+..+++.+|++|
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i   80 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDIN-GKKVKLQIWDTAGQERFRTITTAYYRGAMGII   80 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESS-SCEEEEEEECCTTGGGTSCCCHHHHTTEEEEE
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEEC-CEEEEEEEEeCCCChhhhhhHHHHhccCCEEE
Confidence            46899999999999999999999988877777777766666666554 44489999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      +|+|++++.++..+..|+..+......+.|+++|+||+|+ .......++...+++..+++++++||+++.|++++|++|
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l  159 (170)
T 1g16_A           81 LVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTL  159 (170)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTC-TTCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccC-CcCccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHH
Confidence            9999999999999999999988876678999999999998 444566778888898999999999999999999999999


Q ss_pred             HHHcCCCC
Q 028884          192 AKRLPRPS  199 (202)
Q Consensus       192 ~~~i~~~~  199 (202)
                      .+.+.++.
T Consensus       160 ~~~~~~~~  167 (170)
T 1g16_A          160 AKLIQEKI  167 (170)
T ss_dssp             HHHHHHTC
T ss_pred             HHHHHHHh
Confidence            99887653

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=100.00  E-value=9.4e-34  Score=201.61  Aligned_cols=171  Identities=30%  Similarity=0.475  Sum_probs=147.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|.+|+|||||+++|.++.+...+.++.+.+.....+.+.++..+.+.+||+||++.+...+..+++.+|++
T Consensus         4 ~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~   83 (178)
T 2hxs_A            4 MRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGV   83 (178)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSEE
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCEE
Confidence            46799999999999999999999998876556667766777777777665568999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCC--CCCe-EEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGS--PDIV-MALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQL  187 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~  187 (202)
                      |+|||++++.++..+..|+..+.....  ...| +++|+||+|+.+...+..++...++...+++++++||++|.|++++
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  163 (178)
T 2hxs_A           84 LLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLC  163 (178)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEEECTTTCTTHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHH
Confidence            999999999999999999988876421  2344 8999999999776677778888999999999999999999999999


Q ss_pred             HHHHHHHcCCCCCC
Q 028884          188 FEEIAKRLPRPSPS  201 (202)
Q Consensus       188 ~~~l~~~i~~~~~~  201 (202)
                      |++|.+.+.+.+..
T Consensus       164 ~~~l~~~~~~~~~~  177 (178)
T 2hxs_A          164 FQKVAAEILGIKLN  177 (178)
T ss_dssp             HHHHHHHHTTCCCC
T ss_pred             HHHHHHHHHhhhhc
Confidence            99999999887654

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=100.00  E-value=2.7e-33  Score=199.93  Aligned_cols=168  Identities=30%  Similarity=0.454  Sum_probs=144.2

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|.+|+|||||+++|.++.+...+.++....+ ...+.. ++..+.+.+||+||++.+..++..+++.+|++
T Consensus         4 ~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   81 (181)
T 3t5g_A            4 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITV-NGQEYHLQLVDTAGQDEYSIFPQTYSIDINGY   81 (181)
T ss_dssp             EEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCCCTTCCCCGGGTTTCSEE
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEE-CCEEEEEEEEeCCCchhhhHHHHHHHhcCCEE
Confidence            4689999999999999999999998887777776666655 444444 45558899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      ++|||++++.+++.+..|+..+... ...++|+++|+||+|+.+...+..++...++...+++++++||+++.|++++|+
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~  161 (181)
T 3t5g_A           82 ILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFR  161 (181)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCTTSHHHHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEEecCCCCCHHHHHH
Confidence            9999999999999999999888655 445899999999999988888889999999999999999999999999999999


Q ss_pred             HHHHHcCCCCC
Q 028884          190 EIAKRLPRPSP  200 (202)
Q Consensus       190 ~l~~~i~~~~~  200 (202)
                      +|++.+.+.+.
T Consensus       162 ~l~~~~~~~~~  172 (181)
T 3t5g_A          162 RIILEAEKMDG  172 (181)
T ss_dssp             HHHHHHHTC--
T ss_pred             HHHHHHHHhcC
Confidence            99999877653

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=100.00  E-value=2.2e-33  Score=203.78  Aligned_cols=167  Identities=39%  Similarity=0.730  Sum_probs=138.5

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      .++.++|+|+|.+|+|||||+++|.++.+...+.++.+.+.....+.+. +..+.+.+||+||++.+...+..+++.+|+
T Consensus        22 ~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~  100 (200)
T 2o52_A           22 SDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVG-GKTVKLQIWDTAGQERFRSVTRSYYRGAAG  100 (200)
T ss_dssp             CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEET-TEEEEEEEECCTTHHHHSCCCHHHHTTCSE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEEC-CeeeEEEEEcCCCcHhHHHHHHHHhccCCE
Confidence            3568999999999999999999999988877777777766666666554 444899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|+|||++++.++..+..|+..+......+.|+++|+||+|+.....+...+...++...+++++++||++|.|++++|+
T Consensus       101 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~  180 (200)
T 2o52_A          101 ALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFL  180 (200)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999998877667899999999999977667778888899999999999999999999999999


Q ss_pred             HHHHHcCC
Q 028884          190 EIAKRLPR  197 (202)
Q Consensus       190 ~l~~~i~~  197 (202)
                      +|++.+.+
T Consensus       181 ~l~~~i~~  188 (200)
T 2o52_A          181 KCARTILN  188 (200)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99987754

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=100.00  E-value=8.7e-33  Score=200.86  Aligned_cols=166  Identities=36%  Similarity=0.630  Sum_probs=146.8

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      .++.++|+|+|.+|+|||||+++|.+..+...+.++.+..+....+... +..+.+.+||+||.+.+...+..+++.+|+
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (203)
T 1zbd_A            5 FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRN-DKRIKLQIWDTAGLERYRTITTAYYRGAMG   83 (203)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEET-TEEEEEEEEEECCSGGGHHHHHTTGGGCSE
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEEC-CeEEEEEEEECCCchhhcchHHHhhcCCCE
Confidence            3568999999999999999999999988877777777766666655554 444899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|+|||++++.++..+..|+..+......+.|+++|+||+|+.+...+..++...++...+++++++||++|.|++++|+
T Consensus        84 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  163 (203)
T 1zbd_A           84 FILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFE  163 (203)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSCCSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCcccccCHHHHHHHHHHCCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999999999998877667899999999999987777788888999999999999999999999999999


Q ss_pred             HHHHHcC
Q 028884          190 EIAKRLP  196 (202)
Q Consensus       190 ~l~~~i~  196 (202)
                      +|.+.+.
T Consensus       164 ~l~~~i~  170 (203)
T 1zbd_A          164 RLVDVIC  170 (203)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988764

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=100.00  E-value=1.1e-33  Score=205.24  Aligned_cols=169  Identities=33%  Similarity=0.582  Sum_probs=135.3

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ...+.++|+|+|.+|+|||||+++|.++.+.....++.+.++....+.+. +..+.+.+||+||.+.+...+..+++.+|
T Consensus        24 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d  102 (199)
T 2p5s_A           24 SSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVD-GERTVLQLWDTAGQERFRSIAKSYFRKAD  102 (199)
T ss_dssp             ----CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEET-TEEEEEEEEECTTCTTCHHHHHHHHHHCS
T ss_pred             CcCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEEC-CEEEEEEEEECCCCcchhhhHHHHHhhCC
Confidence            34568999999999999999999999988776666666666655556554 44488999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCC------CCCCCChHHHHHHHHHcCCeEEEeccCCCC
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH------EKREVPAQDGIEYAEKNGMFFIETSAKTAD  182 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~------~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  182 (202)
                      ++|+|||++++.++..+..|+..+......+.|+++|+||+|+.      ....+..++...++...+++++++||++|.
T Consensus       103 ~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~  182 (199)
T 2p5s_A          103 GVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGS  182 (199)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHTCEEEECCTTTCT
T ss_pred             EEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHHHHHHHHcCCeEEEeeCCCCC
Confidence            99999999999999999999999887766789999999999985      345667788888999999999999999999


Q ss_pred             CHHHHHHHHHHHcCCC
Q 028884          183 NINQLFEEIAKRLPRP  198 (202)
Q Consensus       183 ~i~~~~~~l~~~i~~~  198 (202)
                      |++++|++|++.+.++
T Consensus       183 gv~el~~~l~~~i~~~  198 (199)
T 2p5s_A          183 NIVEAVLHLAREVKKR  198 (199)
T ss_dssp             THHHHHHHHHHHHTC-
T ss_pred             CHHHHHHHHHHHHHhh
Confidence            9999999999998764

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=100.00  E-value=8.8e-36  Score=216.23  Aligned_cols=197  Identities=39%  Similarity=0.648  Sum_probs=141.1

Q ss_pred             CCCCCCCCCccCCCCCCCCCcccCCCCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCC
Q 028884            1 MGCSGSVPARSSGQSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDS   80 (202)
Q Consensus         1 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (202)
                      ||-+...+...+.+.......+........++.++|+|+|.+|+|||||+++|.+..+.....++.+.+.....+.+. +
T Consensus         1 ~~~~~~~~~~~~~~~~~~~G~pm~~~~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~   79 (199)
T 3l0i_B            1 MGSSHHHHHHSSGENLYFQGRPMSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELD-G   79 (199)
T ss_dssp             ------------------------CC-CCCSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEET-T
T ss_pred             CCcccCCCCCCCCCcCccCCCcccccCcccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEEC-C
Confidence            554333333333443333333333444455778999999999999999999999988777666777777766666664 4


Q ss_pred             cEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChH
Q 028884           81 TTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQ  160 (202)
Q Consensus        81 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~  160 (202)
                      ..+.+.+||+||++.+...+..+++.+|++|+|||++++.++..+..|+..+......+.|+++|+||+|+.+...+...
T Consensus        80 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~v~~~  159 (199)
T 3l0i_B           80 KTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYT  159 (199)
T ss_dssp             EEEEEEEECCTTCTTCCCCSCC--CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--CCCCSC
T ss_pred             EEEEEEEEECCCcHhHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccccCCHH
Confidence            44889999999999999999999999999999999999999999999999998876778999999999999877777777


Q ss_pred             HHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          161 DGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       161 ~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      +...++...+++++++||+++.|++++|++|++.+.++
T Consensus       160 ~~~~~~~~~~~~~~~vSA~~g~gv~~l~~~l~~~l~~~  197 (199)
T 3l0i_B          160 TAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKR  197 (199)
T ss_dssp             C-CHHHHTTTCCBCCCCC---HHHHHHHHHHTTTTTTT
T ss_pred             HHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            78888999999999999999999999999999988765

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=100.00  E-value=2.1e-33  Score=206.17  Aligned_cols=168  Identities=35%  Similarity=0.629  Sum_probs=144.3

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCc---------EEEEEEEeCCChhhhhhcc
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDST---------TVKFEIWDTAGQERYAALA  100 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~i~D~~G~~~~~~~~  100 (202)
                      .++.++|+|+|.+|+|||||+++|.+..+...+.++.+.++....+.+.+..         .+.+.+||+||++.+...+
T Consensus        22 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~  101 (217)
T 2f7s_A           22 YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLT  101 (217)
T ss_dssp             CSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHH
T ss_pred             cceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHhHH
Confidence            4678999999999999999999999988766666666666655555555431         4789999999999999999


Q ss_pred             cccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCC-CCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccC
Q 028884          101 PLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGS-PDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAK  179 (202)
Q Consensus       101 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~  179 (202)
                      ..+++.+|++|+|||++++.++..+..|+..+..... .++|++||+||+|+.....+..++...++...+++++++||+
T Consensus       102 ~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~  181 (217)
T 2f7s_A          102 TAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAA  181 (217)
T ss_dssp             HHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTT
T ss_pred             HHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHHHHHHHHHHCCCcEEEEECC
Confidence            9999999999999999999999999999887765533 689999999999997766777888999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHcCC
Q 028884          180 TADNINQLFEEIAKRLPR  197 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i~~  197 (202)
                      ++.|++++|++|.+.+.+
T Consensus       182 ~g~gi~~l~~~l~~~i~~  199 (217)
T 2f7s_A          182 TGQNVEKAVETLLDLIMK  199 (217)
T ss_dssp             TTBTHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHH
Confidence            999999999999987754

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=100.00  E-value=1.4e-33  Score=204.90  Aligned_cols=172  Identities=31%  Similarity=0.475  Sum_probs=141.2

Q ss_pred             CCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhccccccc
Q 028884           26 SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR  105 (202)
Q Consensus        26 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~  105 (202)
                      .+.+..+.++|+|+|.+|+|||||+++|.++.+...+.++....+ ...+... +..+.+.+||+||.+.+..++..+++
T Consensus        17 q~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~   94 (201)
T 3oes_A           17 QGMPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLG-KDEFHLHLVDTAGQDEYSILPYSFII   94 (201)
T ss_dssp             ------CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC-----CEEEEEEEECCCCTTCCCCGGGTT
T ss_pred             CCCCCCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEEC-CEEEEEEEEECCCccchHHHHHHHHh
Confidence            334456789999999999999999999999988777666666554 3333333 33488999999999999999999999


Q ss_pred             CccEEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCH
Q 028884          106 GAAVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       106 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i  184 (202)
                      .+|++|+|||++++.++..+..|+..+... ...++|+++|+||+|+.....+...+...++...+++++++||++|.|+
T Consensus        95 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v  174 (201)
T 3oes_A           95 GVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLT  174 (201)
T ss_dssp             TCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHH
T ss_pred             cCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCCCH
Confidence            999999999999999999999999988765 3457899999999999887888888999999999999999999999999


Q ss_pred             HHHHHHHHHHcCCCC
Q 028884          185 NQLFEEIAKRLPRPS  199 (202)
Q Consensus       185 ~~~~~~l~~~i~~~~  199 (202)
                      +++|++|++.+.+..
T Consensus       175 ~~l~~~l~~~i~~~~  189 (201)
T 3oes_A          175 QGIFTKVIQEIARVE  189 (201)
T ss_dssp             HHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHhhh
Confidence            999999999886554

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=100.00  E-value=1.1e-33  Score=204.09  Aligned_cols=168  Identities=35%  Similarity=0.678  Sum_probs=140.8

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      +....++|+|+|.+|+|||||+++|.++.+.....++.+.+.....+.+. +..+.+.+||+||.+.+...+..+++.+|
T Consensus        22 ~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d  100 (192)
T 2il1_A           22 PADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELR-GKKIRLQIWDTAGQERFNSITSAYYRSAK  100 (192)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEET-TEEEEEEEEEECCSGGGHHHHHHHHHHCS
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEEC-CeEEEEEEEeCCCcHHHHHHHHHHhcCCC
Confidence            34678999999999999999999999988777777777777766666654 44489999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc-CCeEEEeccCCCCCHHHH
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN-GMFFIETSAKTADNINQL  187 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~s~~~~~~i~~~  187 (202)
                      ++|+|||++++.++..+..|+..+......+.|+++|+||+|+.+...+..++...++... +.+++++||++|.|++++
T Consensus       101 ~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l  180 (192)
T 2il1_A          101 GIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEI  180 (192)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCeEEEEeCCCCCCHHHH
Confidence            9999999999999999999999888876678999999999999776677778888888874 889999999999999999


Q ss_pred             HHHHHHHcCC
Q 028884          188 FEEIAKRLPR  197 (202)
Q Consensus       188 ~~~l~~~i~~  197 (202)
                      |++|.+.+.+
T Consensus       181 ~~~l~~~i~~  190 (192)
T 2il1_A          181 FLKLVDDILK  190 (192)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988754

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=100.00  E-value=4.6e-33  Score=198.02  Aligned_cols=167  Identities=44%  Similarity=0.779  Sum_probs=146.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|.+|+|||||+++|.++.+...+.++.+.+.....+.+. +..+.+.+||+||++.+...+..+++.+|++
T Consensus        12 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~   90 (179)
T 2y8e_A           12 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQERFRSLIPSYIRDSTVA   90 (179)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEET-TEEEEEEEEEECCSGGGGGGSHHHHHTCSEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEEC-CeEEEEEEEECCCcHHHHHHHHHHhcCCCEE
Confidence            356999999999999999999999988877777777777766666654 4447899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |+|||++++.++..+..|+..+......+.|+++|+||+|+.+...+...+...++...+++++++||+++.|++++|++
T Consensus        91 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  170 (179)
T 2y8e_A           91 VVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRR  170 (179)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999887765678999999999999877777788888899999999999999999999999999


Q ss_pred             HHHHcCCC
Q 028884          191 IAKRLPRP  198 (202)
Q Consensus       191 l~~~i~~~  198 (202)
                      |.+.+.+.
T Consensus       171 l~~~~~~~  178 (179)
T 2y8e_A          171 VAAALPGM  178 (179)
T ss_dssp             HHHTCC--
T ss_pred             HHHHHhhc
Confidence            99988653

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=100.00  E-value=6.7e-33  Score=199.37  Aligned_cols=169  Identities=35%  Similarity=0.685  Sum_probs=142.4

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh-hcccccccC
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA-ALAPLYYRG  106 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~  106 (202)
                      .+..+.++|+|+|.+|+|||||+++|.++.+.....++.+.++....+.+. +..+.+.+||+||.+.+. .++..+++.
T Consensus        15 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   93 (189)
T 1z06_A           15 GSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDID-GERIKIQLWDTAGQERFRKSMVQHYYRN   93 (189)
T ss_dssp             ----CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEET-TEEEEEEEEECCCSHHHHTTTHHHHHTT
T ss_pred             CCCCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEEC-CEEEEEEEEECCCchhhhhhhhHHHhcC
Confidence            334568999999999999999999999998877777777777766666654 344899999999999998 888899999


Q ss_pred             ccEEEEEEeCCChhHHHHHHHHHHHHHHcC-CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCC---C
Q 028884          107 AAVAVVVYDITSPDSFNKAQYWVKELQKHG-SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTA---D  182 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~---~  182 (202)
                      +|++|+|||++++.++..+..|+..+.... ..+.|+++|+||+|+.+...+..++...++...+++++++||+++   .
T Consensus        94 ~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~~  173 (189)
T 1z06_A           94 VHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDND  173 (189)
T ss_dssp             CCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGS
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHHHHcCCEEEEEeCCcCCccc
Confidence            999999999999999999999999887763 568999999999999777777788889999999999999999999   9


Q ss_pred             CHHHHHHHHHHHcCC
Q 028884          183 NINQLFEEIAKRLPR  197 (202)
Q Consensus       183 ~i~~~~~~l~~~i~~  197 (202)
                      |+.++|++|++.+.+
T Consensus       174 ~i~~l~~~l~~~i~~  188 (189)
T 1z06_A          174 HVEAIFMTLAHKLKS  188 (189)
T ss_dssp             CHHHHHHHHC-----
T ss_pred             CHHHHHHHHHHHHhh
Confidence            999999999988754

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=100.00  E-value=3.9e-33  Score=196.46  Aligned_cols=165  Identities=32%  Similarity=0.586  Sum_probs=145.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      +..++|+|+|.+|+|||||+++|.++.+...+.++.+.+.....+... +..+.+.+||+||++.+..++..+++.+|++
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   81 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVN-DEDVRLMLWDTAGQEEFDAITKAYYRGAQAC   81 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEET-TEEEEEEEECCTTGGGTTCCCHHHHTTCCEE
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEEC-CEEEEEEEEcCCCcHhHHHHHHHHhcCCCEE
Confidence            457999999999999999999999988877777777777766666654 3448999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      ++|||++++.++..+..|+..+.... .+.|+++|+||+|+.+...+..++...++...+++++++|++++.|++++|++
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  160 (168)
T 1z2a_A           82 VLVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKY  160 (168)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHH
Confidence            99999999999999999998887663 67899999999999876677788888999999999999999999999999999


Q ss_pred             HHHHcCC
Q 028884          191 IAKRLPR  197 (202)
Q Consensus       191 l~~~i~~  197 (202)
                      |.+.+.+
T Consensus       161 l~~~~~~  167 (168)
T 1z2a_A          161 LAEKHLQ  167 (168)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHhh
Confidence            9988754

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=100.00  E-value=3.2e-33  Score=202.25  Aligned_cols=173  Identities=27%  Similarity=0.326  Sum_probs=138.9

Q ss_pred             CCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh-cccccc
Q 028884           26 SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA-LAPLYY  104 (202)
Q Consensus        26 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~  104 (202)
                      ...+....++|+|+|.+|+|||||+++|.+........++.+.+.....+.+ ++..+.+.+||++|.+.+.. ++..++
T Consensus        16 ~~~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~i~Dt~g~~~~~~~~~~~~~   94 (195)
T 3cbq_A           16 FQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMV-DKEEVTLVVYDIWEQGDAGGWLRDHCL   94 (195)
T ss_dssp             ------CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEE-TTEEEEEEEECCCCCSGGGHHHHHHHH
T ss_pred             CCCCCCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEE-CCEEEEEEEEecCCCccchhhhHHHhh
Confidence            4444567899999999999999999999764433233344444444555554 44558999999999987664 777788


Q ss_pred             cCccEEEEEEeCCChhHHHHHHHHHHHHHHcC-CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCC
Q 028884          105 RGAAVAVVVYDITSPDSFNKAQYWVKELQKHG-SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADN  183 (202)
Q Consensus       105 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~  183 (202)
                      +.+|++|+|||++++.++..+..|+..+.... ..++|+++|+||+|+.+.+.+..++...++...+++++++||+++.|
T Consensus        95 ~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~  174 (195)
T 3cbq_A           95 QTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHN  174 (195)
T ss_dssp             HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEEEBTTTTBS
T ss_pred             ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCcCHHHHHHHHHHhCCEEEEEcCCCCCC
Confidence            89999999999999999999999999887653 35899999999999987777888888999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCC
Q 028884          184 INQLFEEIAKRLPRPS  199 (202)
Q Consensus       184 i~~~~~~l~~~i~~~~  199 (202)
                      ++++|++|++.+.+++
T Consensus       175 v~~lf~~l~~~i~~~~  190 (195)
T 3cbq_A          175 TRELFEGAVRQIRLRR  190 (195)
T ss_dssp             HHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            9999999999887654

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=100.00  E-value=2.8e-32  Score=196.33  Aligned_cols=169  Identities=31%  Similarity=0.599  Sum_probs=146.2

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEE-EEEEEecCC--------cEEEEEEEeCCChhhhhhc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFL-SQTIALQDS--------TTVKFEIWDTAGQERYAAL   99 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~--------~~~~~~i~D~~G~~~~~~~   99 (202)
                      ..++.++|+|+|.+|+|||||+++|.++.+.....++.+.++. ...+...+.        ..+.+.+||+||++.+...
T Consensus         7 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   86 (195)
T 3bc1_A            7 DYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSL   86 (195)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHHH
T ss_pred             ccceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHHH
Confidence            4567899999999999999999999998887777777777665 444444433        1589999999999999999


Q ss_pred             ccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCC-CCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEecc
Q 028884          100 APLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGS-PDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSA  178 (202)
Q Consensus       100 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~  178 (202)
                      +..+++.+|++|+|||++++.++..+..|+..+..... .+.|+++|+||+|+.+...+..++...++...+++++++||
T Consensus        87 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  166 (195)
T 3bc1_A           87 TTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSA  166 (195)
T ss_dssp             HHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECCT
T ss_pred             HHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCCEEEEEC
Confidence            99999999999999999999999999999998877643 68999999999999776677788888999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHcCC
Q 028884          179 KTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       179 ~~~~~i~~~~~~l~~~i~~  197 (202)
                      +++.|++++|++|.+.+.+
T Consensus       167 ~~~~~v~~l~~~l~~~~~~  185 (195)
T 3bc1_A          167 ANGTNISHAIEMLLDLIMK  185 (195)
T ss_dssp             TTCTTHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHH
Confidence            9999999999999987754

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=100.00  E-value=6.3e-33  Score=195.74  Aligned_cols=165  Identities=28%  Similarity=0.353  Sum_probs=129.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh-cccccccCccEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA-LAPLYYRGAAVAV  111 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~~i  111 (202)
                      .+||+|+|.+|+|||||+++|.+........++.+.+.....+.+ ++..+.+.+||++|.+.+.. ++..+++.+|+++
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i   80 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMV-DKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFL   80 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEE-TTEEEEEEEECCCCC--------CHHHHHCSEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEE-CCeEEEEEEEECCCccccchhhhhhhhccCCEEE
Confidence            589999999999999999999987766555555555555555555 44458999999999998875 7777888999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcC-CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHG-SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      +|||++++.++..+..|+..+.... ..++|+++|+||+|+.+...+..++...++...+++++++||+++.|++++|++
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~  160 (169)
T 3q85_A           81 IVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEG  160 (169)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEecCccCCCHHHHHHH
Confidence            9999999999999999999887763 348999999999999877788889999999999999999999999999999999


Q ss_pred             HHHHcCCC
Q 028884          191 IAKRLPRP  198 (202)
Q Consensus       191 l~~~i~~~  198 (202)
                      |++.+..+
T Consensus       161 l~~~i~~~  168 (169)
T 3q85_A          161 AVRQIRLR  168 (169)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHhc
Confidence            99988654

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=100.00  E-value=1e-32  Score=202.33  Aligned_cols=169  Identities=24%  Similarity=0.476  Sum_probs=141.8

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGA  107 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~  107 (202)
                      .+....+||+|+|.+|+|||||+++|.++.+...+.++.+..+ ...+.. ++..+.+.+||++|++.+..++..+++.+
T Consensus        22 ~~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~   99 (214)
T 3q3j_B           22 QPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLET-EEQRVELSLWDTSGSPYYDNVRPLCYSDS   99 (214)
T ss_dssp             -----CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC---CEEEEEEEEECCSGGGTTTGGGGCTTC
T ss_pred             CCccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEE-CCEEEEEEEEECCCCHhHHHHHHHHcCCC
Confidence            3445689999999999999999999999988777777766655 333333 34458999999999999999999999999


Q ss_pred             cEEEEEEeCCChhHHHH-HHHHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcCC-eE
Q 028884          108 AVAVVVYDITSPDSFNK-AQYWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNGM-FF  173 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~  173 (202)
                      |++|+|||++++.++.. +..|+..+... .++.|+++|+||+|+.+.            +.+..+++..++...++ ++
T Consensus       100 d~~i~v~d~~~~~s~~~~~~~~~~~i~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  178 (214)
T 3q3j_B          100 DAVLLCFDISRPETVDSALKKWRTEILDY-CPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIY  178 (214)
T ss_dssp             SEEEEEEETTCTHHHHHHHTHHHHHHHHH-CTTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTCSEE
T ss_pred             eEEEEEEECcCHHHHHHHHHHHHHHHHHh-CCCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCCCEE
Confidence            99999999999999998 69999999877 468999999999998653            56788899999999999 99


Q ss_pred             EEeccCCCCC-HHHHHHHHHHHcCCCC
Q 028884          174 IETSAKTADN-INQLFEEIAKRLPRPS  199 (202)
Q Consensus       174 ~~~s~~~~~~-i~~~~~~l~~~i~~~~  199 (202)
                      +++||++|.| ++++|++|++.+.++.
T Consensus       179 ~e~SA~~g~g~v~~lf~~l~~~~~~~~  205 (214)
T 3q3j_B          179 LEGSAFTSEKSIHSIFRTASMLCLNKP  205 (214)
T ss_dssp             EECCTTTCHHHHHHHHHHHHHHHHC--
T ss_pred             EEeccCCCcccHHHHHHHHHHHHhccC
Confidence            9999999998 9999999999887654

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=100.00  E-value=3.4e-32  Score=193.40  Aligned_cols=167  Identities=33%  Similarity=0.626  Sum_probs=140.7

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ..+.++|+|+|.+|+|||||+++|.++.+.....++.+.+.....+.+. +..+.+.+||+||++.+...+..+++.+|+
T Consensus         4 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   82 (177)
T 1wms_A            4 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVD-GHFVTMQIWDTAGQERFRSLRTPFYRGSDC   82 (177)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEET-TEEEEEEEEECCCCGGGHHHHGGGGTTCSE
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEEC-CEEEEEEEEeCCCchhhhhhHHHHHhcCCE
Confidence            3568999999999999999999999988877777777776666666654 444899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCC----CCCeEEEEEeCCCCCCCCCCChHHHHHHHH-HcCCeEEEeccCCCCCH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGS----PDIVMALVGNKADLHEKREVPAQDGIEYAE-KNGMFFIETSAKTADNI  184 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~s~~~~~~i  184 (202)
                      +++|||++++.++..+..|+..+.....    .+.|+++|+||+|+. ......++...++. ..+++++++||++|.|+
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  161 (177)
T 1wms_A           83 CLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNV  161 (177)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCEEECCTTTCTTH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCH
Confidence            9999999999999999999988876533    678999999999987 45566778888887 56788999999999999


Q ss_pred             HHHHHHHHHHcCCC
Q 028884          185 NQLFEEIAKRLPRP  198 (202)
Q Consensus       185 ~~~~~~l~~~i~~~  198 (202)
                      +++|++|++.+.+.
T Consensus       162 ~~l~~~l~~~~~~~  175 (177)
T 1wms_A          162 AAAFEEAVRRVLAT  175 (177)
T ss_dssp             HHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999988654

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=100.00  E-value=3.4e-32  Score=196.46  Aligned_cols=169  Identities=29%  Similarity=0.536  Sum_probs=144.2

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ...+.++|+|+|.+|+|||||+++|.++.+...+.++.+..+.. .+.. ++..+.+.+||+||++.+..++..+++.+|
T Consensus        19 ~~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~-~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   96 (194)
T 3reg_A           19 NGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSH-VMKY-KNEEFILHLWDTAGQEEYDRLRPLSYADSD   96 (194)
T ss_dssp             --CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEE-EEEE-TTEEEEEEEEEECCSGGGTTTGGGGCTTCS
T ss_pred             ccceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeEE-EEEE-CCEEEEEEEEECCCcHHHHHHhHhhccCCc
Confidence            34568999999999999999999999998876666666555543 3333 455588999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCCCC--CCCChHHHHHHHHHcCCe-EEEeccCCCCCH
Q 028884          109 VAVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHEK--REVPAQDGIEYAEKNGMF-FIETSAKTADNI  184 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~~~--~~~~~~~~~~~~~~~~~~-~~~~s~~~~~~i  184 (202)
                      ++|+|||++++.++..+ ..|+..+... ..+.|+++|+||+|+.+.  ..+..++...++...++. ++++||++|.|+
T Consensus        97 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  175 (194)
T 3reg_A           97 VVLLCFAVNNRTSFDNISTKWEPEIKHY-IDTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGL  175 (194)
T ss_dssp             EEEEEEETTCHHHHHHHHHTHHHHHHHH-CTTSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTTBSH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCCCCH
Confidence            99999999999999987 7888888766 467999999999998753  567788899999999988 999999999999


Q ss_pred             HHHHHHHHHHcCCCCC
Q 028884          185 NQLFEEIAKRLPRPSP  200 (202)
Q Consensus       185 ~~~~~~l~~~i~~~~~  200 (202)
                      +++|++|++.+.+++.
T Consensus       176 ~~l~~~l~~~i~~~~~  191 (194)
T 3reg_A          176 NEVFEKSVDCIFSNKP  191 (194)
T ss_dssp             HHHHHHHHHHHHCSCC
T ss_pred             HHHHHHHHHHHHhcCC
Confidence            9999999999877654

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=100.00  E-value=6.4e-33  Score=197.77  Aligned_cols=169  Identities=36%  Similarity=0.643  Sum_probs=132.2

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ..+.++|+|+|.+|+|||||+++|.+..+...+.++.+.+.....+.+.++..+.+.+||+||++.+...+..+++.+|+
T Consensus         5 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   84 (182)
T 1ky3_A            5 KKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADC   84 (182)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCE
T ss_pred             cCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCCE
Confidence            45689999999999999999999999888777777777777677776664555899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCC----CCCeEEEEEeCCCCCCC-CCCChHHHHHHHH-HcCCeEEEeccCCCCC
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGS----PDIVMALVGNKADLHEK-REVPAQDGIEYAE-KNGMFFIETSAKTADN  183 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~p~ivv~nK~D~~~~-~~~~~~~~~~~~~-~~~~~~~~~s~~~~~~  183 (202)
                      +|+|||++++.++..+..|+..+.....    .+.|+++|+||+|+... ..+..++...++. ..+.+++++||++|.|
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~g  164 (182)
T 1ky3_A           85 CVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAIN  164 (182)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBS
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHHhcCCCeEEEEecCCCCC
Confidence            9999999999999999999988876532    68899999999998543 4456777888887 4678899999999999


Q ss_pred             HHHHHHHHHHHcCCC
Q 028884          184 INQLFEEIAKRLPRP  198 (202)
Q Consensus       184 i~~~~~~l~~~i~~~  198 (202)
                      ++++|++|.+.+.++
T Consensus       165 i~~l~~~l~~~~~~~  179 (182)
T 1ky3_A          165 VDTAFEEIARSALQQ  179 (182)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999887644

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=100.00  E-value=7e-33  Score=199.14  Aligned_cols=165  Identities=27%  Similarity=0.461  Sum_probs=137.2

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ..+.++|+|+|.+|+|||||+++|.++.+...+.++....+ ...+.. ++..+.+.+||++|++.+..+ ..+++.+|+
T Consensus        18 ~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~   94 (187)
T 3c5c_A           18 GPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETV-DHQPVHLRVMDTADLDTPRNC-ERYLNWAHA   94 (187)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCC---CCCT-HHHHTTCSE
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEE-CCEEEEEEEEECCCCCcchhH-HHHHhhCCE
Confidence            35689999999999999999999999987776676666554 233333 445589999999999988765 568899999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcC---CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEecc-CCCCCHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHG---SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSA-KTADNIN  185 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~-~~~~~i~  185 (202)
                      +|+|||++++.++..+..|+..+....   ..+.|+++|+||+|+...+.+..+++..++...+++++++|| +++.|++
T Consensus        95 ~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~g~gv~  174 (187)
T 3c5c_A           95 FLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQ  174 (187)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECCSSSCSHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHHHHHcCCcEEEEeecCccccHH
Confidence            999999999999999999999887652   258999999999999777778888899999999999999999 8999999


Q ss_pred             HHHHHHHHHcCC
Q 028884          186 QLFEEIAKRLPR  197 (202)
Q Consensus       186 ~~~~~l~~~i~~  197 (202)
                      ++|+.|++.+.+
T Consensus       175 ~lf~~l~~~i~~  186 (187)
T 3c5c_A          175 HVFHEAVREARR  186 (187)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhh
Confidence            999999998754

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=100.00  E-value=2.2e-32  Score=196.04  Aligned_cols=164  Identities=18%  Similarity=0.316  Sum_probs=136.8

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGA  107 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~  107 (202)
                      ....+.+||+|+|.+|+|||||+++|.++.+...+.++. ..+ ...+.+ ++..+.+.+||++|++.+.     +++.+
T Consensus        15 ~~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~-~~~-~~~~~~-~~~~~~l~i~Dt~G~~~~~-----~~~~~   86 (184)
T 3ihw_A           15 YFQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEG-GRF-KKEIVV-DGQSYLLLIRDEGGPPELQ-----FAAWV   86 (184)
T ss_dssp             -CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTC-EEE-EEEEEE-TTEEEEEEEEECSSSCCHH-----HHHHC
T ss_pred             CCCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCc-ceE-EEEEEE-CCEEEEEEEEECCCChhhh-----eecCC
Confidence            445668999999999999999999999998876666552 223 344444 4455889999999998776     67789


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCC-CCCeEEEEEeCCCCC--CCCCCChHHHHHHHHHcC-CeEEEeccCCCCC
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGS-PDIVMALVGNKADLH--EKREVPAQDGIEYAEKNG-MFFIETSAKTADN  183 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~D~~--~~~~~~~~~~~~~~~~~~-~~~~~~s~~~~~~  183 (202)
                      |++++|||++++.+++.+..|+..+..... .+.|+++|+||+|+.  ....+..+++..++...+ ++++++||++|.|
T Consensus        87 ~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~g  166 (184)
T 3ihw_A           87 DAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLN  166 (184)
T ss_dssp             SEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTTTBT
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEecCCCCCC
Confidence            999999999999999999999999887643 689999999999984  456678888999999986 8999999999999


Q ss_pred             HHHHHHHHHHHcCCCC
Q 028884          184 INQLFEEIAKRLPRPS  199 (202)
Q Consensus       184 i~~~~~~l~~~i~~~~  199 (202)
                      ++++|++|++.+.+.+
T Consensus       167 v~~lf~~l~~~i~~~~  182 (184)
T 3ihw_A          167 VERVFQDVAQKVVALR  182 (184)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            9999999999876554

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=3e-32  Score=196.52  Aligned_cols=167  Identities=44%  Similarity=0.779  Sum_probs=145.1

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ..+.++|+|+|.+|+|||||+++|.+..+...+.++.+.+.....+.+. +..+.+.+||+||++.+..++..+++.+|+
T Consensus        12 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   90 (195)
T 1x3s_A           12 VLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVD-GNKAKLAIWDTAGQERFRTLTPSYYRGAQG   90 (195)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEET-TEEEEEEEEEECSSGGGCCSHHHHHTTCCE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEEC-CeEEEEEEEeCCCchhhhhhhHHHhccCCE
Confidence            3467999999999999999999999998877777777777766666654 344899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcC-CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHG-SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      +|+|||++++.++..+..|+..+.... ..+.|+++|+||+|+. ...+..++...++...+++++++||+++.|++++|
T Consensus        91 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  169 (195)
T 1x3s_A           91 VILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAF  169 (195)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSS-SCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCc-ccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHH
Confidence            999999999999999999999887653 3579999999999984 34566778888999999999999999999999999


Q ss_pred             HHHHHHcCCC
Q 028884          189 EEIAKRLPRP  198 (202)
Q Consensus       189 ~~l~~~i~~~  198 (202)
                      ++|.+.+.+.
T Consensus       170 ~~l~~~~~~~  179 (195)
T 1x3s_A          170 EELVEKIIQT  179 (195)
T ss_dssp             HHHHHHHHTS
T ss_pred             HHHHHHHHhh
Confidence            9999988654

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=100.00  E-value=1.4e-32  Score=195.85  Aligned_cols=167  Identities=29%  Similarity=0.519  Sum_probs=143.0

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ....++|+|+|.+|+|||||+++|.++.+...+.++....+. ..+.. ++..+.+.+||+||++.+..++..+++.+|+
T Consensus         6 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~-~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   83 (181)
T 2fn4_A            6 PSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSV-DGIPARLDILDTAGQEEFGAMREQYMRAGHG   83 (181)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEE-TTEEEEEEEEECCCTTTTSCCHHHHHHHCSE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEE-CCEEEEEEEEECCCchhhHHHHHHHHhhCCE
Confidence            356799999999999999999999998876666666655543 33443 3445889999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHH-cCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      +++|||++++.++..+..|+..+.. ....+.|+++|+||+|+.+...+..++...++...+++++++||++|.|++++|
T Consensus        84 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~  163 (181)
T 2fn4_A           84 FLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAF  163 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Confidence            9999999999999999999988744 456689999999999998777777888889999999999999999999999999


Q ss_pred             HHHHHHcCCC
Q 028884          189 EEIAKRLPRP  198 (202)
Q Consensus       189 ~~l~~~i~~~  198 (202)
                      ++|.+.+.+.
T Consensus       164 ~~l~~~~~~~  173 (181)
T 2fn4_A          164 EQLVRAVRKY  173 (181)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999887644

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=100.00  E-value=4.3e-32  Score=198.43  Aligned_cols=168  Identities=40%  Similarity=0.764  Sum_probs=143.4

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGA  107 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~  107 (202)
                      ....+.++|+|+|.+|+|||||+++|.+..+.....++.+.++....+.+. +..+.+.+||+||++.+...+..+++.+
T Consensus        15 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   93 (213)
T 3cph_A           15 KSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDIN-GKKVKLQLWDTAGQERFRTITTAYYRGA   93 (213)
T ss_dssp             -----CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEET-TEEEEEEEECCTTGGGGTCCCHHHHTTC
T ss_pred             CCCCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEEC-CEEEEEEEEeCCCcHHHHHHHHHHhccC
Confidence            344567999999999999999999999988877777777777766666654 4448899999999999999999999999


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQL  187 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~  187 (202)
                      |++|+|||++++.++..+..|+..+......+.|+++|+||+|+ ....+..++...++...+++++++||+++.|++++
T Consensus        94 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  172 (213)
T 3cph_A           94 MGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEI  172 (213)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTC-SSCCSCHHHHHHHHHHHTCCEEECBTTTTBSSHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC-cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            99999999999999999999999988876668999999999998 44556677888888888999999999999999999


Q ss_pred             HHHHHHHcCC
Q 028884          188 FEEIAKRLPR  197 (202)
Q Consensus       188 ~~~l~~~i~~  197 (202)
                      |++|.+.+.+
T Consensus       173 ~~~l~~~~~~  182 (213)
T 3cph_A          173 FFTLAKLIQE  182 (213)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999987753

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=100.00  E-value=3.2e-32  Score=191.56  Aligned_cols=164  Identities=34%  Similarity=0.573  Sum_probs=140.1

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.++|+|+|.+|+|||||+++|.++.+...+.++...... ..+.. ++..+.+.+||+||++.+..++..+++.+|+++
T Consensus         2 ~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~-~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i   79 (167)
T 1c1y_A            2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEV-DCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFA   79 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEES-SSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceEE-EEEEE-CCEEEEEEEEECCChHHHHHHHHHHhccCCEEE
Confidence            3689999999999999999999998877666666554442 33333 444589999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc-CCeEEEeccCCCCCHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN-GMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|||++++.++..+..|+..+... ...+.|+++|+||+|+.+.+.+..++...++... +.+++++||++|.|++++|+
T Consensus        80 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  159 (167)
T 1c1y_A           80 LVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFY  159 (167)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHH
Confidence            999999999999999998887664 4568999999999999877777788888888887 78999999999999999999


Q ss_pred             HHHHHcCC
Q 028884          190 EIAKRLPR  197 (202)
Q Consensus       190 ~l~~~i~~  197 (202)
                      +|.+.+.+
T Consensus       160 ~l~~~i~~  167 (167)
T 1c1y_A          160 DLVRQINR  167 (167)
T ss_dssp             HHHHHHTC
T ss_pred             HHHHHHhC
Confidence            99988753

>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=100.00  E-value=7.3e-32  Score=194.66  Aligned_cols=166  Identities=28%  Similarity=0.564  Sum_probs=140.8

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ..+.++|+|+|.+|+|||||+++|.++.+...+.++....+ ...+.+ ++..+.+.+||+||++.+..++..+++.+|+
T Consensus        15 ~~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   92 (194)
T 2atx_A           15 GALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTV-GGKQYLLGLYDTAGQEDYDRLRPLSYPMTDV   92 (194)
T ss_dssp             EEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEES-SSCEEEEEEECCCCSSSSTTTGGGGCTTCSE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEE-CCEEEEEEEEECCCCcchhHHHHHhcCCCCE
Confidence            34689999999999999999999999887666666655544 333443 4455899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcCC-eEEE
Q 028884          110 AVVVYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNGM-FFIE  175 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~  175 (202)
                      +|+|||++++.++..+. .|+..+... .++.|+++|+||+|+.+.            +.+..++...++...++ ++++
T Consensus        93 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~  171 (194)
T 2atx_A           93 FLICFSVVNPASFQNVKEEWVPELKEY-APNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVE  171 (194)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHH-STTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCcEEEE
Confidence            99999999999999986 798888876 348999999999998753            35677888889988887 8999


Q ss_pred             eccCCCCCHHHHHHHHHHHcCCC
Q 028884          176 TSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       176 ~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      +||++|.|++++|++|++.+.++
T Consensus       172 ~Sa~~g~gi~~l~~~l~~~i~~p  194 (194)
T 2atx_A          172 CSALTQKGLKTVFDEAIIAILTP  194 (194)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHCC
T ss_pred             eeCCCCCCHHHHHHHHHHHHhcC
Confidence            99999999999999999987653

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=100.00  E-value=3e-32  Score=191.72  Aligned_cols=163  Identities=30%  Similarity=0.415  Sum_probs=118.8

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .+||+|+|.+|+|||||+++|.+...... .++.+... ...+.. ++..+.+.+||++|++.+..++..+++.+|++++
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~~~-~~~~~~~~-~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~   78 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDGPE-AEAAGHTY-DRSIVV-DGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVI   78 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEE-EEEEEE-TTEEEEEEEEECC---------------CCEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCccccCC-CCccccce-EEEEEE-CCEEEEEEEEECCCCccchhhhhhhhhhCCEEEE
Confidence            58999999999999999999987665433 22333333 233333 4555899999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      |||++++.++..+..|+..+... ...++|+++|+||+|+.+...+..++...++...+++++++||++|.|++++|++|
T Consensus        79 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  158 (166)
T 3q72_A           79 VYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGV  158 (166)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHHHHHHHHTTCEEEECBGGGTBSHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHHHHHHHHhCCcEEEeccCCCCCHHHHHHHH
Confidence            99999999999999999888765 45689999999999998888888889999999999999999999999999999999


Q ss_pred             HHHcCCC
Q 028884          192 AKRLPRP  198 (202)
Q Consensus       192 ~~~i~~~  198 (202)
                      .+.+.++
T Consensus       159 ~~~~~~~  165 (166)
T 3q72_A          159 VRQIRLR  165 (166)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            9987543

>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=100.00  E-value=1e-31  Score=195.14  Aligned_cols=164  Identities=34%  Similarity=0.645  Sum_probs=139.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...++|+|+|.+|+|||||+++|.++.+...+.++.+..+.. .+.. ++..+.+.+||+||++.+..++..+++.+|++
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~-~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~  100 (201)
T 2gco_A           23 AIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIA-DIEV-DGKQVELALWDTAGQEDYDRLRPLSYPDTDVI  100 (201)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCEE-EEEE-TTEEEEEEEECCCCSGGGTTTGGGGCTTCSEE
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEEE-EEEE-CCEEEEEEEEECCCchhHHHHHHHhcCCCCEE
Confidence            467999999999999999999999988876666666555533 2333 44458999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcCC-eEEEe
Q 028884          111 VVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNGM-FFIET  176 (202)
Q Consensus       111 i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~  176 (202)
                      |+|||++++.++..+ ..|+..+... .++.|+++|+||+|+.+.            +.+..++...++...+. +++++
T Consensus       101 i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  179 (201)
T 2gco_A          101 LMCFSIDSPDSLENIPEKWTPEVKHF-CPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLEC  179 (201)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHH-STTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEEe
Confidence            999999999999988 6888888765 357999999999998764            45677788888888888 89999


Q ss_pred             ccCCCCCHHHHHHHHHHHcCC
Q 028884          177 SAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       177 s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      ||++|.|++++|++|.+.+.+
T Consensus       180 SA~~g~gi~~l~~~i~~~~l~  200 (201)
T 2gco_A          180 SAKTKEGVREVFEMATRAGLQ  200 (201)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHC
T ss_pred             eCCCCCCHHHHHHHHHHHHhc
Confidence            999999999999999987643

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=100.00  E-value=3e-32  Score=193.25  Aligned_cols=165  Identities=30%  Similarity=0.412  Sum_probs=129.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh--hhhcccccccCccE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER--YAALAPLYYRGAAV  109 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--~~~~~~~~~~~~d~  109 (202)
                      +.++|+|+|.+|+|||||+++|.+..+..... +.+.+.....+.+. +..+.+.+||+||.+.  +..+...+++.+|+
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~~-~~~~~~~~~~~~~~-~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~   80 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGKQERDLHE-QLGEDVYERTLTVD-GEDTTLVVVDTWEAEKLDKSWSQESCLQGGSA   80 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC-----CC-CSSSSEEEEEEEET-TEEEEEEEECCC-------CHHHHHTTTSCSE
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcCCCccccC-ccccceeEEEEEEC-CEEEEEEEEecCCCCccchhhhHHhhcccCCE
Confidence            57999999999999999999999987654433 34444444555543 4447899999999887  56667788899999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      +++|||++++.++..+..|+..+... ...+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  160 (175)
T 2nzj_A           81 YVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELF  160 (175)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHH
Confidence            99999999999999999999888765 34579999999999998777777888888888899999999999999999999


Q ss_pred             HHHHHHcCCC
Q 028884          189 EEIAKRLPRP  198 (202)
Q Consensus       189 ~~l~~~i~~~  198 (202)
                      ++|.+.+.++
T Consensus       161 ~~l~~~~~~~  170 (175)
T 2nzj_A          161 EGVVRQLRLR  170 (175)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999987544

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=100.00  E-value=5.9e-32  Score=190.19  Aligned_cols=164  Identities=31%  Similarity=0.546  Sum_probs=138.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.++|+|+|.+|+|||||+++|.++.+...+.++..... ...+.. ++..+.+.+||+||++.+...+..+++.+|+++
T Consensus         3 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i   80 (168)
T 1u8z_A            3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVL-DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFL   80 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCC---CHHHHHHHHHHCSEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEE-EEEEEE-CCEEEEEEEEECCCcchhHHHHHHHhhcCCEEE
Confidence            469999999999999999999999887666665555444 233333 444588999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      +|||++++.++..+..|+..+... ...+.|+++|+||+|+.+...+..++...++...+++++++||+++.|++++|++
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  160 (168)
T 1u8z_A           81 CVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFD  160 (168)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHH
Confidence            999999999999999999888765 3458999999999999776677788899999999999999999999999999999


Q ss_pred             HHHHcCC
Q 028884          191 IAKRLPR  197 (202)
Q Consensus       191 l~~~i~~  197 (202)
                      |.+.+.+
T Consensus       161 l~~~i~~  167 (168)
T 1u8z_A          161 LMREIRA  167 (168)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHh
Confidence            9998764

>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=100.00  E-value=9.3e-33  Score=202.86  Aligned_cols=170  Identities=32%  Similarity=0.520  Sum_probs=146.6

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ....++|+|+|.+|+|||||+++|.++.+.....++.+.......+...++..+.+.+||+||++.+..++..+++.+|+
T Consensus         8 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (218)
T 4djt_A            8 RELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASG   87 (218)
T ss_dssp             --CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCSE
T ss_pred             ccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCCE
Confidence            45689999999999999999999999887766667777766666666656666899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|+|||++++.++..+..|+..+......+.|+++|+||+|+.+...+...+...++...+++++++||++|.|++++|+
T Consensus        88 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~  167 (218)
T 4djt_A           88 AILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFL  167 (218)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----CCHHHHHHHTTTCCCEEEEEBTTTTBTTTHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHH
Confidence            99999999999999999999998877666799999999999987777888888888889999999999999999999999


Q ss_pred             HHHHHcCCCC
Q 028884          190 EIAKRLPRPS  199 (202)
Q Consensus       190 ~l~~~i~~~~  199 (202)
                      +|.+.+.+..
T Consensus       168 ~l~~~~~~~~  177 (218)
T 4djt_A          168 HLARIFTGRP  177 (218)
T ss_dssp             HHHHHHHCCT
T ss_pred             HHHHHHhccc
Confidence            9999987654

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=100.00  E-value=3.7e-31  Score=191.95  Aligned_cols=164  Identities=44%  Similarity=0.778  Sum_probs=141.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCc-----------------------------
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDST-----------------------------   81 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------------   81 (202)
                      ++.++|+|+|.+|+|||||+++|++..+...+.++.+..+....+.+.+..                             
T Consensus         5 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (208)
T 3clv_A            5 KSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQHN   84 (208)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC-------------------------------
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCccccccccccccccccccccccccccccccc
Confidence            467999999999999999999999998877777777666666655554321                             


Q ss_pred             -------EEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884           82 -------TVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus        82 -------~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                             .+.+.+||+||++.+...+..+++.+|++|+|||++++.++..+..|+..+....  +.|+++|+||+| ...
T Consensus        85 ~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~--~~piilv~NK~D-~~~  161 (208)
T 3clv_A           85 NYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISS--NYIIILVANKID-KNK  161 (208)
T ss_dssp             CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS--CCEEEEEEECTT-CC-
T ss_pred             cccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhC--CCcEEEEEECCC-ccc
Confidence                   1789999999999999999999999999999999999999999999999887764  399999999999 555


Q ss_pred             CCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      ..+..++...++...+++++++||+++.|+.++|++|.+.+.+
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  204 (208)
T 3clv_A          162 FQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYK  204 (208)
T ss_dssp             CCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            6677888999999999999999999999999999999988754

>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=100.00  E-value=7.4e-32  Score=197.07  Aligned_cols=168  Identities=29%  Similarity=0.378  Sum_probs=133.5

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCC-CCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh-hhhcccccccC
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFD-PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER-YAALAPLYYRG  106 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~  106 (202)
                      .....+||+|+|.+|+|||||+++|.+.... ....++.+.+.....+.+ ++..+.+.+||++|.+. +..+...+++.
T Consensus        33 ~~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~~~~g~d~~~~~i~~-~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~  111 (211)
T 2g3y_A           33 SGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMV-DGESATIILLDMWENKGENEWLHDHCMQV  111 (211)
T ss_dssp             --CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEE-TTEEEEEEEECCTTTTHHHHHHHHCCCCC
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcCCccceeeEEEEEEE-CCeeeEEEEeecCCCcchhhhHHHHHHhh
Confidence            3456799999999999999999999974431 122233444444455555 44558899999999876 55667778899


Q ss_pred             ccEEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHH
Q 028884          107 AAVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNIN  185 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~  185 (202)
                      +|++|+|||++++.+|..+..|+..+... ...++|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++
T Consensus       112 a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e~~~~a~~~~~~~~e~SAk~g~~v~  191 (211)
T 2g3y_A          112 GDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVK  191 (211)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            99999999999999999999998877654 23579999999999997766777778888888899999999999999999


Q ss_pred             HHHHHHHHHcCC
Q 028884          186 QLFEEIAKRLPR  197 (202)
Q Consensus       186 ~~~~~l~~~i~~  197 (202)
                      ++|++|++.+..
T Consensus       192 elf~~l~~~i~~  203 (211)
T 2g3y_A          192 ELFEGIVRQVRL  203 (211)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988754

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=100.00  E-value=1.7e-31  Score=194.50  Aligned_cols=166  Identities=38%  Similarity=0.707  Sum_probs=141.0

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ..+.++|+|+|.+|+|||||+++|.+..+...+.++.+.+.....+.+.+ ..+.+.+||+||++.+..++..+++.+|+
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (207)
T 1vg8_A            5 KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDD-RLVTMQIWDTAGQERFQSLGVAFYRGADC   83 (207)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSS-CEEEEEEEEECSSGGGSCSCCGGGTTCSE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECC-EEEEEEEEeCCCcHHHHHhHHHHHhCCcE
Confidence            35689999999999999999999999988777777777777666666544 44899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCC----CCCeEEEEEeCCCCCCCCCCChHHHHHHHH-HcCCeEEEeccCCCCCH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGS----PDIVMALVGNKADLHEKREVPAQDGIEYAE-KNGMFFIETSAKTADNI  184 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~s~~~~~~i  184 (202)
                      +|+|||++++.++..+..|+..+.....    .+.|+++|+||+|+. ...+..++...++. ..+++++++||++|.|+
T Consensus        84 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi  162 (207)
T 1vg8_A           84 CVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE-NRQVATKRAQAWCYSKNNIPYFETSAKEAINV  162 (207)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSS-CCCSCHHHHHHHHHHTTSCCEEECBTTTTBSH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCH
Confidence            9999999999999999999988766532    478999999999987 44556677777777 66788999999999999


Q ss_pred             HHHHHHHHHHcCC
Q 028884          185 NQLFEEIAKRLPR  197 (202)
Q Consensus       185 ~~~~~~l~~~i~~  197 (202)
                      +++|++|.+.+.+
T Consensus       163 ~~l~~~l~~~~~~  175 (207)
T 1vg8_A          163 EQAFQTIARNALK  175 (207)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988753

>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=100.00  E-value=8.6e-32  Score=192.83  Aligned_cols=165  Identities=27%  Similarity=0.553  Sum_probs=138.2

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ....++|+|+|.+|+|||||+++|.++.+...+.++....+ ...+.+ ++..+.+.+||+||++.+..++..+++.+|+
T Consensus         4 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   81 (184)
T 1m7b_A            4 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEI-DTQRIELSLWDTSGSPYYDNVRPLSYPDSDA   81 (184)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC-SSCEEEEEEEEECCSGGGTTTGGGGCTTCSE
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEE-CCEEEEEEEEECCCChhhhhhHHhhcCCCcE
Confidence            45689999999999999999999999888766666665544 233443 3445899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcC-CeEEE
Q 028884          110 AVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNG-MFFIE  175 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~  175 (202)
                      +|+|||++++.++..+ ..|+..+... .++.|+++|+||+|+.+.            ..+..+++..++...+ +++++
T Consensus        82 ~i~v~d~~~~~s~~~~~~~~~~~i~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e  160 (184)
T 1m7b_A           82 VLICFDISRPETLDSVLKKWKGEIQEF-CPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIE  160 (184)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHH-CTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHH-CCCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEE
Confidence            9999999999999988 7898888776 358999999999998642            4567788888998877 78999


Q ss_pred             eccC-CCCCHHHHHHHHHHHcCC
Q 028884          176 TSAK-TADNINQLFEEIAKRLPR  197 (202)
Q Consensus       176 ~s~~-~~~~i~~~~~~l~~~i~~  197 (202)
                      +||+ ++.|++++|+.|.+.+.+
T Consensus       161 ~Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          161 CSALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             CBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             eeecCCCcCHHHHHHHHHHHHhc
Confidence            9999 689999999999988754

>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=100.00  E-value=4.6e-32  Score=197.62  Aligned_cols=165  Identities=27%  Similarity=0.553  Sum_probs=138.0

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ....++|+|+|.+|+|||||+++|.+..+...+.++....+ ...+.+ ++..+.+.+||++|++.+..++..+++.+|+
T Consensus        25 ~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~  102 (205)
T 1gwn_A           25 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEI-DTQRIELSLWDTSGSPYYDNVRPLSYPDSDA  102 (205)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEES-SSSEEEEEEEEECCSGGGTTTGGGGCTTCSE
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEE-CCEEEEEEEEeCCCcHhhhHHHHhhccCCCE
Confidence            35679999999999999999999999888766666665554 333433 4455899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcC-CeEEE
Q 028884          110 AVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNG-MFFIE  175 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~  175 (202)
                      +|+|||++++.++..+ ..|+..+... .++.|+++|+||+|+.+.            ..+..+++..+++..+ +++++
T Consensus       103 ~ilv~D~~~~~s~~~~~~~~~~~i~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e  181 (205)
T 1gwn_A          103 VLICFDISRPETLDSVLKKWKGEIQEF-CPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIE  181 (205)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHH-CTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHH-CCCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEEEE
Confidence            9999999999999988 7898888776 357999999999998642            4567778888988877 68999


Q ss_pred             eccC-CCCCHHHHHHHHHHHcCC
Q 028884          176 TSAK-TADNINQLFEEIAKRLPR  197 (202)
Q Consensus       176 ~s~~-~~~~i~~~~~~l~~~i~~  197 (202)
                      +||+ ++.|++++|+.|++.+.+
T Consensus       182 ~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          182 CSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             CCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             eeeccCCcCHHHHHHHHHHHHhh
Confidence            9999 689999999999987653

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=100.00  E-value=1.5e-31  Score=194.47  Aligned_cols=166  Identities=31%  Similarity=0.535  Sum_probs=142.6

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ..+.++|+|+|.+|+|||||+++|.++.+...+.++....+ ...+.+ ++..+.+.+||+||++.+..++..+++.+|+
T Consensus        11 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~   88 (206)
T 2bov_A           11 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVL-DGEEVQIDILDTAGQEDYAAIRDNYFRSGEG   88 (206)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCTTCCHHHHHHHHHHCSE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEE-CCEEEEEEEEcCCChhhhHHHHHHHHhhCCE
Confidence            35679999999999999999999999887666666655444 333444 3445889999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcC-CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHG-SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      +++|||++++.++..+..|+..+.... ..+.|+++|+||+|+.....+..+++..++...+++++++||++|.|++++|
T Consensus        89 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  168 (206)
T 2bov_A           89 FLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVF  168 (206)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHH
Confidence            999999999999999999999887763 3589999999999998777778888999999999999999999999999999


Q ss_pred             HHHHHHcCC
Q 028884          189 EEIAKRLPR  197 (202)
Q Consensus       189 ~~l~~~i~~  197 (202)
                      ++|++.+.+
T Consensus       169 ~~l~~~i~~  177 (206)
T 2bov_A          169 FDLMREIRA  177 (206)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988754

>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=100.00  E-value=8.1e-32  Score=196.15  Aligned_cols=165  Identities=30%  Similarity=0.580  Sum_probs=134.6

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGA  107 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~  107 (202)
                      ....+.++|+|+|.+|+|||||+++|.++.+...+.++.... ....+.+ ++..+.+.+||+||.+.+...+..+++.+
T Consensus        25 ~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~-~~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~  102 (204)
T 4gzl_A           25 YFQGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDN-YSANVMV-DGKPVNLGLWDTAGLEDYDRLRPLSYPQT  102 (204)
T ss_dssp             -----CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSEEE-EEEEEEC-C-CEEEEEEEEECCSGGGTTTGGGGCTTC
T ss_pred             hhcCCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeecce-eEEEEEE-CCEEEEEEEEECCCchhhHHHHHHHhccC
Confidence            334568999999999999999999999988766666555433 2333443 44558899999999999999999999999


Q ss_pred             cEEEEEEeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCCC------------CCChHHHHHHHHHcCC-eE
Q 028884          108 AVAVVVYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEKR------------EVPAQDGIEYAEKNGM-FF  173 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~  173 (202)
                      |++|+|||++++.++..+. .|+..+.... .++|+++|+||+|+....            .+..++...++...++ ++
T Consensus       103 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  181 (204)
T 4gzl_A          103 DVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKY  181 (204)
T ss_dssp             SEEEEEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEE
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEE
Confidence            9999999999999999986 8888888774 689999999999986543            2667788888888886 59


Q ss_pred             EEeccCCCCCHHHHHHHHHHHc
Q 028884          174 IETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       174 ~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      +++||++|.|++++|++|.+.+
T Consensus       182 ~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          182 LECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             EECCTTTCTTHHHHHHHHHHTT
T ss_pred             EEeeCCCCCCHHHHHHHHHHHh
Confidence            9999999999999999999875

>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=100.00  E-value=2.8e-31  Score=189.98  Aligned_cols=167  Identities=31%  Similarity=0.619  Sum_probs=141.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|.+|+|||||+++|.++.+...+.++..... ...+.. ++..+.+.+||+||++.+...+..+++.+|++
T Consensus         3 ~~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   80 (186)
T 1mh1_A            3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMV-DGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVS   80 (186)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEE-TTEEEEEEEECCCCSGGGTTTGGGGCTTCSEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEE-CCEEEEEEEEECCCCHhHHHHHHHhccCCcEE
Confidence            3579999999999999999999999887666665554443 333333 45558899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcCC-eEEEe
Q 028884          111 VVVYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNGM-FFIET  176 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~  176 (202)
                      |+|||++++.++..+. .|+..+.... ++.|+++|+||+|+.+.            ..+..++...++...+. +++++
T Consensus        81 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  159 (186)
T 1mh1_A           81 LICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLEC  159 (186)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHS-TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEEECCChhhHHHHHHHHHHHHHHhC-CCCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEe
Confidence            9999999999999886 7888887763 48999999999998653            45677788888888887 89999


Q ss_pred             ccCCCCCHHHHHHHHHHHcCCCCC
Q 028884          177 SAKTADNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       177 s~~~~~~i~~~~~~l~~~i~~~~~  200 (202)
                      ||++|.|++++|++|.+.+.++..
T Consensus       160 Sa~~g~gi~~l~~~l~~~~~~~~~  183 (186)
T 1mh1_A          160 SALTQRGLKTVFDEAIRAVLCPPP  183 (186)
T ss_dssp             CTTTCTTHHHHHHHHHHHHSCCCC
T ss_pred             cCCCccCHHHHHHHHHHHHhcccc
Confidence            999999999999999999987764

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=100.00  E-value=1.7e-31  Score=191.13  Aligned_cols=166  Identities=31%  Similarity=0.533  Sum_probs=141.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|.+|+|||||+++|.+..+...+.++..... ...+.. ++..+.+.+||+||++.+..++..+++.+|++
T Consensus        16 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   93 (187)
T 2a9k_A           16 LALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVL-DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGF   93 (187)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCTTCCHHHHHHHHHHCSEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEE-CCEEEEEEEEECCCCcccHHHHHHHhccCCEE
Confidence            4579999999999999999999999887666665555444 333333 44457899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      ++|||++++.++..+..|+..+... ...++|+++|+||+|+.+...+..++...++...+++++++|++++.|++++|+
T Consensus        94 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  173 (187)
T 2a9k_A           94 LCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFF  173 (187)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHH
Confidence            9999999999999999999888765 345899999999999977667778888999999999999999999999999999


Q ss_pred             HHHHHcCCC
Q 028884          190 EIAKRLPRP  198 (202)
Q Consensus       190 ~l~~~i~~~  198 (202)
                      +|.+.+.++
T Consensus       174 ~l~~~i~~~  182 (187)
T 2a9k_A          174 DLMREIRAR  182 (187)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999987653

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=9.8e-32  Score=189.85  Aligned_cols=166  Identities=31%  Similarity=0.460  Sum_probs=139.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.++|+|+|.+|+|||||+++|.++.+...+.++....+. .... .++..+.+.+||+||++.+...+..+++.+|+++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~-~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i   79 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVIS-CDKSICTLQITDTTGSHQFPAMQRLSISKGHAFI   79 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEE-EEEE-ETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccEE-EEEE-ECCEEEEEEEEECCCchhhHHHHHHhcccCCEEE
Confidence            4689999999999999999999998876655555554432 2222 3455578999999999999888888999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcC--CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHG--SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|||++++.+++.+..|+..+....  .++.|+++|+||+|+.....+...+...++...+++++++||+++.|++++|+
T Consensus        80 ~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  159 (172)
T 2erx_A           80 LVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQ  159 (172)
T ss_dssp             EEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEecCCCCcCHHHHHH
Confidence            9999999999998888888776642  25789999999999977777777888888888999999999999999999999


Q ss_pred             HHHHHcCCCC
Q 028884          190 EIAKRLPRPS  199 (202)
Q Consensus       190 ~l~~~i~~~~  199 (202)
                      +|.+.+.+++
T Consensus       160 ~l~~~~~~~~  169 (172)
T 2erx_A          160 ELLNLEKRRT  169 (172)
T ss_dssp             HHHHTCCSSC
T ss_pred             HHHHHHhhhh
Confidence            9999987765

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=100.00  E-value=6.7e-32  Score=189.71  Aligned_cols=163  Identities=34%  Similarity=0.559  Sum_probs=139.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.++|+|+|++|+|||||+++|.++.+...+.++..... ...+.. ++..+.+.+||+||++.+..++..+++.+|+++
T Consensus         2 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i   79 (167)
T 1kao_A            2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFY-RKEIEV-DSSPSVLEILDTAGTEQFASMRDLYIKNGQGFI   79 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcceeE-EEEEEE-CCEEEEEEEEECCCchhhHHHHHHHhccCCEEE
Confidence            368999999999999999999999887766666555433 344444 344578999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      +|||++++.++..+..|+..+... ...+.|+++|+||+|+.+...+...+...++...+++++++||++|.|++++|++
T Consensus        80 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  159 (167)
T 1kao_A           80 LVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAE  159 (167)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHHHHHH
Confidence            999999999999999998887665 3468999999999998776777788888899999999999999999999999999


Q ss_pred             HHHHcC
Q 028884          191 IAKRLP  196 (202)
Q Consensus       191 l~~~i~  196 (202)
                      |.+.+.
T Consensus       160 l~~~~~  165 (167)
T 1kao_A          160 IVRQMN  165 (167)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            998764

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=100.00  E-value=4.7e-32  Score=197.39  Aligned_cols=167  Identities=28%  Similarity=0.484  Sum_probs=108.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC--CCCCCCccccceeEEEEEEEecCCc-EEEEEEEeCCChhhhhhcccccccCc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG--QFDPTSKVTVGASFLSQTIALQDST-TVKFEIWDTAGQERYAALAPLYYRGA  107 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~G~~~~~~~~~~~~~~~  107 (202)
                      ...++|+|+|.+|+|||||+++|.+.  .+...+.++.+.+.....+.+.+.. .+.+.+||+||++.+...+..+++.+
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   97 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGV   97 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhC
Confidence            46799999999999999999999998  6655555665555555555554431 58999999999999999999999999


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCC---CCCeEEEEEeCCCCCC-CCCCChHHHHHHHHHcCCeEEEeccCC-CC
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGS---PDIVMALVGNKADLHE-KREVPAQDGIEYAEKNGMFFIETSAKT-AD  182 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~p~ivv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~~s~~~-~~  182 (202)
                      |++|+|||++++.++..+..|+..+.....   .+.|+++|+||+|+.+ ...+..+++..++...+++++++||++ +.
T Consensus        98 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~  177 (208)
T 2yc2_C           98 YYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGK  177 (208)
T ss_dssp             CEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHHHHTTCEEEECCC-----
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEEeccCCCCc
Confidence            999999999999999999999999988755   6899999999999987 667778889999999999999999999 99


Q ss_pred             CHHHHHHHHHHHcCC
Q 028884          183 NINQLFEEIAKRLPR  197 (202)
Q Consensus       183 ~i~~~~~~l~~~i~~  197 (202)
                      |++++|++|.+.+.+
T Consensus       178 gi~~l~~~i~~~~~~  192 (208)
T 2yc2_C          178 DADAPFLSIATTFYR  192 (208)
T ss_dssp             --CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999987653

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.6e-31  Score=193.32  Aligned_cols=166  Identities=34%  Similarity=0.492  Sum_probs=140.5

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ..+.++|+|+|.+|+|||||+++|.++.+...+.++.+..+ ...+.+ ++..+.+.+||+||.+. ...+..+++.+|+
T Consensus        25 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~  101 (196)
T 2atv_A           25 KSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATI-DDEVVSMEILDTAGQED-TIQREGHMRWGEG  101 (196)
T ss_dssp             --CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCCCC-CHHHHHHHHHCSE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEE-CCEEEEEEEEECCCCCc-ccchhhhhccCCE
Confidence            35679999999999999999999999988777666666544 333333 44458899999999887 6777888899999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCC-CHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD-NINQL  187 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~-~i~~~  187 (202)
                      +|+|||++++.++..+..|+..+... ...+.|+++|+||+|+.+.+.+..++...++...+++++++||+++. |++++
T Consensus       102 iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~~gi~~l  181 (196)
T 2atv_A          102 FVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEI  181 (196)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccccccCHHHHHHHHHHhCCeEEEECCCcCCcCHHHH
Confidence            99999999999999999999888765 34689999999999997767778888899999999999999999999 99999


Q ss_pred             HHHHHHHcCCC
Q 028884          188 FEEIAKRLPRP  198 (202)
Q Consensus       188 ~~~l~~~i~~~  198 (202)
                      |++|++.+.++
T Consensus       182 ~~~l~~~i~~~  192 (196)
T 2atv_A          182 FYELCREVRRR  192 (196)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhh
Confidence            99999987643

>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=99.98  E-value=5e-31  Score=192.31  Aligned_cols=167  Identities=32%  Similarity=0.606  Sum_probs=136.2

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...++|+|+|.+|+|||||+++|.++.+...+.++.+...... +.. ++..+.+.+||+||++.+...+..+++.+|++
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~-~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~  100 (207)
T 2fv8_A           23 MIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVAD-IEV-DGKQVELALWDTAGQEDYDRLRPLSYPDTDVI  100 (207)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEEEE-EEE-TTEEEEEEEEECTTCTTCTTTGGGGCTTCCEE
T ss_pred             ccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEEEE-EEE-CCEEEEEEEEECCCcHHHHHHHHhhcCCCCEE
Confidence            4579999999999999999999999887766666655544332 333 44558999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcCC-eEEEe
Q 028884          111 VVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNGM-FFIET  176 (202)
Q Consensus       111 i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~  176 (202)
                      |+|||++++.++..+ ..|+..+... .++.|+++|+||+|+.+.            +.+..++...++...++ +++++
T Consensus       101 i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  179 (207)
T 2fv8_A          101 LMCFSVDSPDSLENIPEKWVPEVKHF-CPNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLEC  179 (207)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHH-STTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEe
Confidence            999999999999988 7788888765 357999999999998654            34667788888888887 89999


Q ss_pred             ccCCCCCHHHHHHHHHHHcCCCCC
Q 028884          177 SAKTADNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       177 s~~~~~~i~~~~~~l~~~i~~~~~  200 (202)
                      ||++|.|++++|++|.+.+.+++.
T Consensus       180 SA~~g~gi~el~~~l~~~i~~~~~  203 (207)
T 2fv8_A          180 SAKTKEGVREVFETATRAALQKRY  203 (207)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHSCCC
T ss_pred             eCCCCCCHHHHHHHHHHHHHHHhh
Confidence            999999999999999999876643

>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=99.98  E-value=7e-31  Score=188.34  Aligned_cols=163  Identities=32%  Similarity=0.554  Sum_probs=136.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++.++|+|+|.+|+|||||+++|.++.+...+.++..... ...+.. ++..+.+.+||+||++.+..++..+++.+|++
T Consensus         2 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   79 (189)
T 4dsu_A            2 STEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRTGEGF   79 (189)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCC---CTTHHHHHHHCSEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCchheE-EEEEEE-CCcEEEEEEEECCCcHHHHHHHHHHHhcCCEE
Confidence            3579999999999999999999999887666665554333 333333 45558899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      ++|||++++.++..+..|+..+... ...+.|+++|+||+|+.+ .....+....++...+++++++||++|.|++++|+
T Consensus        80 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  158 (189)
T 4dsu_A           80 LCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS-RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFY  158 (189)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSS-CSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcc-cccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            9999999999999999999888774 456899999999999874 45667888889999999999999999999999999


Q ss_pred             HHHHHcC
Q 028884          190 EIAKRLP  196 (202)
Q Consensus       190 ~l~~~i~  196 (202)
                      +|.+.+.
T Consensus       159 ~l~~~~~  165 (189)
T 4dsu_A          159 TLVREIR  165 (189)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9998874

>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=99.98  E-value=1.1e-30  Score=187.87  Aligned_cols=165  Identities=32%  Similarity=0.538  Sum_probs=129.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|.+|+|||||+++|.++.+...+.++..... ...+.. ++..+.+.+||+||.+.+...+..+++.+|++
T Consensus        19 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   96 (190)
T 3con_A           19 MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRTGEGF   96 (190)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCC-----------CTTCSEE
T ss_pred             cceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEE-EEEEEE-CCEEEEEEEEECCChHHHHHHHHHhhCcCCEE
Confidence            4679999999999999999999999887666555544433 333333 34458899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      ++|||++++.++..+..|+..+... ...+.|+++|+||+|+.+ .....++..+++...+++++++|++++.|++++|+
T Consensus        97 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  175 (190)
T 3con_A           97 LCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFY  175 (190)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCc-ccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            9999999999999999999888765 335799999999999876 45667888889999999999999999999999999


Q ss_pred             HHHHHcCCC
Q 028884          190 EIAKRLPRP  198 (202)
Q Consensus       190 ~l~~~i~~~  198 (202)
                      +|.+.+.+.
T Consensus       176 ~l~~~~~~~  184 (190)
T 3con_A          176 TLVREIRQY  184 (190)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999887654

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.98  E-value=1.6e-31  Score=193.87  Aligned_cols=168  Identities=30%  Similarity=0.525  Sum_probs=132.2

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGA  107 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~  107 (202)
                      ....+.++|+|+|.+|+|||||+++|.++.+...+.++....+ ...+.. ++..+.+.+||+||++.+..++..+++.+
T Consensus        15 ~~~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   92 (201)
T 2q3h_A           15 GAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSV-DGRPVRLQLCDTAGQDEFDKLRPLCYTNT   92 (201)
T ss_dssp             -----CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEE-TTEEEEEEEEECCCSTTCSSSGGGGGTTC
T ss_pred             CCCCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEE-CCEEEEEEEEECCCCHHHHHHhHhhcCCC
Confidence            3445689999999999999999999999887666565554433 333333 44558899999999999999999999999


Q ss_pred             cEEEEEEeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCC------------CCCCChHHHHHHHHHcCC-eE
Q 028884          108 AVAVVVYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHE------------KREVPAQDGIEYAEKNGM-FF  173 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~  173 (202)
                      |++|+|||++++.++..+. .|+..+.... ++.|+++|+||+|+.+            ...+..++...++...+. ++
T Consensus        93 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  171 (201)
T 2q3h_A           93 DIFLLCFSVVSPSSFQNVSEKWVPEIRCHC-PKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASY  171 (201)
T ss_dssp             SEEEEEEETTCHHHHHHHHHTHHHHHHHHC-SSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEE
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEE
Confidence            9999999999999999986 7998887763 4899999999999865            245677788888888887 89


Q ss_pred             EEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          174 IETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       174 ~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      +++||+++.|++++|++|++.+.++
T Consensus       172 ~~~Sa~~g~gi~~l~~~l~~~~~~~  196 (201)
T 2q3h_A          172 IECSALTQKNLKEVFDAAIVAGIQY  196 (201)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             EEEecCCCCCHHHHHHHHHHHHhcc
Confidence            9999999999999999999887644

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.98  E-value=1.5e-31  Score=195.58  Aligned_cols=166  Identities=34%  Similarity=0.648  Sum_probs=137.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|.+|+|||||+++|.++.+...+.++....+ ...+.+ ++..+.+.+||+||++.+..++..+++.+|++
T Consensus         7 ~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   84 (212)
T 2j0v_A            7 SKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAV-DGQIVNLGLWDTAGQEDYSRLRPLSYRGADIF   84 (212)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEEC-SSCEEEEEEECCCCCCCCCC--CGGGTTCSEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEE-CCEEEEEEEEECCCcHHHHHHHHhhccCCCEE
Confidence            4679999999999999999999999887766666665544 333343 44558999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCCCC--------CChHHHHHHHHHcCC-eEEEeccCC
Q 028884          111 VVVYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEKRE--------VPAQDGIEYAEKNGM-FFIETSAKT  180 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~--------~~~~~~~~~~~~~~~-~~~~~s~~~  180 (202)
                      |+|||++++.++..+. .|+..+.... ++.|++||+||+|+.....        +..++...++...+. +++++||++
T Consensus        85 ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~  163 (212)
T 2j0v_A           85 VLAFSLISKASYENVLKKWMPELRRFA-PNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKT  163 (212)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECCTTT
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEccCCC
Confidence            9999999999999886 8998887763 5899999999999865432        367778888888886 899999999


Q ss_pred             CCCHHHHHHHHHHHcCCCC
Q 028884          181 ADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       181 ~~~i~~~~~~l~~~i~~~~  199 (202)
                      |.|++++|++|++.+.+..
T Consensus       164 g~gi~~l~~~l~~~~~~~~  182 (212)
T 2j0v_A          164 QQNVKAVFDTAIKVVLQPP  182 (212)
T ss_dssp             CTTHHHHHHHHHHHHHCC-
T ss_pred             CCCHHHHHHHHHHHHhhhh
Confidence            9999999999999886653

>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=99.98  E-value=4.2e-31  Score=188.04  Aligned_cols=159  Identities=22%  Similarity=0.360  Sum_probs=129.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.+||+|+|.+|+|||||+++|.++.+.. +.++.+..+ ...+.+ ++..+.+.+||++|++.     ..+++.+|++
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~   76 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLV-DGQTHLVLIREEAGAPD-----AKFSGWADAV   76 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEE-EEEEEE-TTEEEEEEEEECSSSCC-----HHHHHHCSEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeE-EEEEEE-CCEEEEEEEEECCCCch-----hHHHHhCCEE
Confidence            457999999999999999999999988865 555555433 444444 44558899999999875     3467789999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc---CCCCCeEEEEEeCCCCC--CCCCCChHHHHHHHHHc-CCeEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH---GSPDIVMALVGNKADLH--EKREVPAQDGIEYAEKN-GMFFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~---~~~~~p~ivv~nK~D~~--~~~~~~~~~~~~~~~~~-~~~~~~~s~~~~~~i  184 (202)
                      |+|||++++.++..+..|+..+...   ..++.|+++|+||+|+.  ..+.+..+++..++... +++++++||++|.|+
T Consensus        77 ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~i  156 (178)
T 2iwr_A           77 IFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNV  156 (178)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTBTH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEeccccCCH
Confidence            9999999999999999877665543   33689999999999984  44567778888888876 688999999999999


Q ss_pred             HHHHHHHHHHcCC
Q 028884          185 NQLFEEIAKRLPR  197 (202)
Q Consensus       185 ~~~~~~l~~~i~~  197 (202)
                      +++|++|++.+.+
T Consensus       157 ~~lf~~l~~~~~~  169 (178)
T 2iwr_A          157 DRVFQEVAQKVVT  169 (178)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999987754

>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=99.98  E-value=2.8e-31  Score=194.62  Aligned_cols=167  Identities=33%  Similarity=0.598  Sum_probs=120.2

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|.+|+|||||+++|.++.+...+.++....+ ...+.+ ++..+.+.+||+||++.+..++..+++.+|++
T Consensus        32 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~  109 (214)
T 2j1l_A           32 VRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQV-KGKPVHLHIWDTAGQDDYDRLRPLFYPDASVL  109 (214)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEE-EEEEEE-TTEEEEEEEEEC---------------CEEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEE-CCEEEEEEEEECCCchhhhHHHHHHhccCCEE
Confidence            4579999999999999999999999887666665554433 333333 44458899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCCC------------CCChHHHHHHHHHcCC-eEEEe
Q 028884          111 VVVYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEKR------------EVPAQDGIEYAEKNGM-FFIET  176 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~~~~  176 (202)
                      |+|||++++.++..+. .|+..+... .+++|+++|+||+|+....            .+..++...+++..++ +++++
T Consensus       110 i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  188 (214)
T 2j1l_A          110 LLCFDVTSPNSFDNIFNRWYPEVNHF-CKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLEC  188 (214)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHH-CSSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHh-CCCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEe
Confidence            9999999999999986 798888776 3679999999999987642            5667788889988887 89999


Q ss_pred             ccCCCCCHHHHHHHHHHHcCCCCC
Q 028884          177 SAKTADNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       177 s~~~~~~i~~~~~~l~~~i~~~~~  200 (202)
                      ||++|.|++++|++|++.+.+.+.
T Consensus       189 SA~~g~gi~el~~~l~~~~~~~~~  212 (214)
T 2j1l_A          189 SARLHDNVHAVFQEAAEVALSSRG  212 (214)
T ss_dssp             BTTTTBSHHHHHHHHHHHHHHC--
T ss_pred             cCCCCCCHHHHHHHHHHHHHHhhc
Confidence            999999999999999998876543

>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=99.98  E-value=6e-32  Score=192.90  Aligned_cols=165  Identities=32%  Similarity=0.627  Sum_probs=126.5

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|.+|+|||||+++|.++.+...+.++....+. ..+.. ++..+.+.+||+||++.+...+..+++.+|++
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~-~~~~~-~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   83 (182)
T 3bwd_D            6 SRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVV-NGATVNLGLWDTAGQEDYNRLRPLSYRGADVF   83 (182)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CB-CCCC--------CEEECCCC-CTTTTTGGGGGTTCSEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEE-EEEEE-CCEEEEEEEEECCCChhhhhhHHhhccCCCEE
Confidence            45799999999999999999999998876555555443321 11222 33447788999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCCCC----------CChHHHHHHHHHcCC-eEEEecc
Q 028884          111 VVVYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEKRE----------VPAQDGIEYAEKNGM-FFIETSA  178 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~s~  178 (202)
                      ++|||++++.++..+. .|+..+.... ++.|+++|+||+|+.+...          +..++...++...++ +++++||
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa  162 (182)
T 3bwd_D           84 ILAFSLISKASYENVSKKWIPELKHYA-PGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSS  162 (182)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECCT
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEEEC
Confidence            9999999999999986 7988887763 4899999999999865433          467778888888886 8999999


Q ss_pred             CCCCCHHHHHHHHHHHcCCC
Q 028884          179 KTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       179 ~~~~~i~~~~~~l~~~i~~~  198 (202)
                      ++|.|++++|++|.+.+.++
T Consensus       163 ~~~~gi~~l~~~l~~~i~~~  182 (182)
T 3bwd_D          163 KSQENVKGVFDAAIRVVLQP  182 (182)
T ss_dssp             TTCTTHHHHHHHHHHHHSCC
T ss_pred             CCCCCHHHHHHHHHHHHhcC
Confidence            99999999999999988764

>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=99.97  E-value=1.4e-30  Score=188.39  Aligned_cols=166  Identities=32%  Similarity=0.468  Sum_probs=138.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...++|+|+|.+|+|||||+++|.++.+...+.++....+. ..+.. ++..+.+.+||+||++.+..++..+++.+|++
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   83 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISC-DKSVCTLQITDTTGSHQFPAMQRLSISKGHAF   83 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEEE-EEEEE-TTEEEEEEEEECCGGGSCHHHHHHHHHHCSEE
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCcccccee-EEEEE-CCEEEEEEEEeCCChHHhHHHHHHhhccCCEE
Confidence            45799999999999999999999998876666665554332 22333 45558899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcC--CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHG--SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      |+|||++++.++..+..|+..+....  ..+.|+++|+||+|+.+ ..+..++...++...+++++++||++|.|++++|
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  162 (199)
T 2gf0_A           84 ILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ-REVDTREAQAVAQEWKCAFMETSAKMNYNVKELF  162 (199)
T ss_dssp             EEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSS-CSSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCc-cccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Confidence            99999999999998888887776542  24789999999999875 4566778888888899999999999999999999


Q ss_pred             HHHHHHcCCCC
Q 028884          189 EEIAKRLPRPS  199 (202)
Q Consensus       189 ~~l~~~i~~~~  199 (202)
                      ++|.+.+.++.
T Consensus       163 ~~l~~~~~~~~  173 (199)
T 2gf0_A          163 QELLTLETRRN  173 (199)
T ss_dssp             HHHHHHCSSSC
T ss_pred             HHHHHHHhhhh
Confidence            99999987664

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=99.97  E-value=1.8e-30  Score=182.07  Aligned_cols=162  Identities=31%  Similarity=0.562  Sum_probs=136.7

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .++|+++|.+|+|||||+++|.++.+.....++..... ...+.. ++..+.+.+||+||++.+...+..+++.+|++++
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~   80 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVI-DGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   80 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceEE-EEEEEE-CCEEEEEEEEECCCchhhhHHHHHhhccCCEEEE
Confidence            58999999999999999999999887666555554433 333333 3445889999999999888888889999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      |||++++.++..+..|+..+... ...+.|+++|+||+|+.+ .....++...++...+++++++|++++.|++++|++|
T Consensus        81 v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  159 (166)
T 2ce2_X           81 VFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTL  159 (166)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEEECTTTCTTHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhh-cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Confidence            99999999999999999888765 335799999999999876 4566778888999999999999999999999999999


Q ss_pred             HHHcCC
Q 028884          192 AKRLPR  197 (202)
Q Consensus       192 ~~~i~~  197 (202)
                      .+.+.+
T Consensus       160 ~~~~~~  165 (166)
T 2ce2_X          160 VREIRQ  165 (166)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            988754

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=99.97  E-value=1.1e-31  Score=197.69  Aligned_cols=169  Identities=29%  Similarity=0.556  Sum_probs=142.1

Q ss_pred             CCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccC
Q 028884           27 SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRG  106 (202)
Q Consensus        27 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~  106 (202)
                      .......+||+|+|.+|+|||||+++|+.+.+...+.++.+.+......... +..+.+.+||+||++.+..++..+++.
T Consensus         9 ~~~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~~   87 (221)
T 3gj0_A            9 QGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTN-RGPIKFNVWDTAGQEKFGGLRDGYYIQ   87 (221)
T ss_dssp             TTCCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEET-TEEEEEEEEEECSGGGTSCCCHHHHTT
T ss_pred             CCCcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEEC-CEEEEEEEEeCCChHHHhHHHHHHHhc
Confidence            3445678999999999999999999987776666666677666666665554 344899999999999999999999999


Q ss_pred             ccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 028884          107 AAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQ  186 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~  186 (202)
                      +|++|+|||++++.++..+..|+..+.... .++|+++|+||+|+.+...  ..+...++...+++++++||+++.|+.+
T Consensus        88 ~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  164 (221)
T 3gj0_A           88 AQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRKV--KAKSIVFHRKKNLQYYDISAKSNYNFEK  164 (221)
T ss_dssp             CCEEEEEEETTCHHHHHTHHHHHHHHHHHS-TTCCEEEEEECTTSSSCSS--CGGGCCHHHHHTCEEEECBGGGTBTTTH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECCccccccc--cHHHHHHHHHcCCEEEEEeCCCCCCHHH
Confidence            999999999999999999999999988773 5799999999999875443  2355667788899999999999999999


Q ss_pred             HHHHHHHHcCCCC
Q 028884          187 LFEEIAKRLPRPS  199 (202)
Q Consensus       187 ~~~~l~~~i~~~~  199 (202)
                      +|++|.+.+....
T Consensus       165 l~~~l~~~l~~~~  177 (221)
T 3gj0_A          165 PFLWLARKLIGDP  177 (221)
T ss_dssp             HHHHHHHHHHTCT
T ss_pred             HHHHHHHHHHhCc
Confidence            9999999886653

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.97  E-value=4.3e-31  Score=191.13  Aligned_cols=167  Identities=17%  Similarity=0.291  Sum_probs=126.5

Q ss_pred             CCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccc
Q 028884           26 SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYY  104 (202)
Q Consensus        26 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~  104 (202)
                      ...+..+..+|+|+|.+|+|||||+++|.++.+.. .+.++.+...  ..+.  .. .+.+.+||+||++.+..++..++
T Consensus        10 ~~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~--~~~~--~~-~~~~~i~Dt~G~~~~~~~~~~~~   84 (199)
T 4bas_A           10 HMGQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNV--ETFE--KG-RVAFTVFDMGGAKKFRGLWETYY   84 (199)
T ss_dssp             ------CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEE--EEEE--ET-TEEEEEEEECCSGGGGGGGGGGC
T ss_pred             cccCCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeE--EEEE--eC-CEEEEEEECCCCHhHHHHHHHHH
Confidence            34555678999999999999999999999988776 5566655333  2332  22 27899999999999999999999


Q ss_pred             cCccEEEEEEeCCChhHHHHHHHHHHHHHHcCC--------CCCeEEEEEeCCCCCCCCCCChHHHHH------HHHHcC
Q 028884          105 RGAAVAVVVYDITSPDSFNKAQYWVKELQKHGS--------PDIVMALVGNKADLHEKREVPAQDGIE------YAEKNG  170 (202)
Q Consensus       105 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--------~~~p~ivv~nK~D~~~~~~~~~~~~~~------~~~~~~  170 (202)
                      +.+|++|+|||++++.++..+..|+..+.....        .++|++||+||+|+.....  ..+...      ++...+
T Consensus        85 ~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~  162 (199)
T 4bas_A           85 DNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKT--AAELVEILDLTTLMGDHP  162 (199)
T ss_dssp             TTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCC--HHHHHHHHTHHHHHTTSC
T ss_pred             hcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCC--HHHHHHHhcchhhccCCe
Confidence            999999999999999999999888887755311        3789999999999876532  112111      113467


Q ss_pred             CeEEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          171 MFFIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       171 ~~~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      ++++++||+++.|++++|++|++.+.++.
T Consensus       163 ~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~  191 (199)
T 4bas_A          163 FVIFASNGLKGTGVHEGFSWLQETASRQS  191 (199)
T ss_dssp             EEEEECBTTTTBTHHHHHHHHHHHHHHHC
T ss_pred             eEEEEeeCCCccCHHHHHHHHHHHHHHHh
Confidence            78999999999999999999999876544

>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=99.97  E-value=4.7e-31  Score=189.64  Aligned_cols=167  Identities=23%  Similarity=0.331  Sum_probs=128.1

Q ss_pred             CCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhccccccc
Q 028884           26 SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR  105 (202)
Q Consensus        26 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~  105 (202)
                      ......+.++|+|+|.+|+|||||+++|.++.+...+.++.+..+..  +..  .. +.+.+||+||++.+...+..+++
T Consensus        15 ~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~~--~~-~~~~l~Dt~G~~~~~~~~~~~~~   89 (188)
T 1zd9_A           15 VPRGSKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--ITK--GN-VTIKLWDIGGQPRFRSMWERYCR   89 (188)
T ss_dssp             ----CCEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EEE--TT-EEEEEEEECCSHHHHTTHHHHHT
T ss_pred             cccCCCCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEEE--EEe--CC-EEEEEEECCCCHhHHHHHHHHHc
Confidence            33444568999999999999999999999988776666666555432  322  22 78999999999999999999999


Q ss_pred             CccEEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH-----HcCCeEEEeccC
Q 028884          106 GAAVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAE-----KNGMFFIETSAK  179 (202)
Q Consensus       106 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~  179 (202)
                      .+|++|+|||++++.++..+..|+..+... ...+.|+++|+||+|+....  ...+......     ..+++++++||+
T Consensus        90 ~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~  167 (188)
T 1zd9_A           90 GVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDREICCYSISCK  167 (188)
T ss_dssp             TCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTT
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccCC--CHHHHHHHhChhhhccCCeeEEEEECC
Confidence            999999999999999999998888877653 23689999999999986542  2222222211     234579999999


Q ss_pred             CCCCHHHHHHHHHHHcCCCC
Q 028884          180 TADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i~~~~  199 (202)
                      +|.|++++|++|.+.+.+++
T Consensus       168 ~g~gv~~l~~~l~~~~~~~~  187 (188)
T 1zd9_A          168 EKDNIDITLQWLIQHSKSRR  187 (188)
T ss_dssp             TCTTHHHHHHHHHHTCC---
T ss_pred             CCCCHHHHHHHHHHHHHhhc
Confidence            99999999999999987754

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.97  E-value=8.9e-30  Score=183.68  Aligned_cols=164  Identities=30%  Similarity=0.396  Sum_probs=129.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCC--CCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh-hhhcccccccCc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQF--DPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER-YAALAPLYYRGA  107 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~  107 (202)
                      ...++|+++|.+|+|||||+++|.+...  ...+ ++.+.+.....+.+ ++..+.+.+||++|.+. +..+...+++.+
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~-~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~   81 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDX-EVLGEDTYERTLMV-DGESATIILLDMWENKGENEWLHDHCMQVG   81 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEE-TTEEEEEEEECCCCC----CTTGGGHHHHC
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCcCCcCccc-cccceeEEEEEEEE-CCeEEEEEEEEeccCcchhhhHHHhhcccC
Confidence            4579999999999999999999996432  2222 23444444455554 44557889999999776 456677788889


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQ  186 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~  186 (202)
                      |++++|||++++.+|..+..|+..+... ...+.|+++|+||+|+...+.+...+...++...+++++++||++|.|+++
T Consensus        82 ~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~SA~~g~~v~~  161 (192)
T 2cjw_A           82 DAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKE  161 (192)
T ss_dssp             SEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccHHHHHHHHHHhCCceEEeccccCCCHHH
Confidence            9999999999999999999998877764 345799999999999876666777777888888899999999999999999


Q ss_pred             HHHHHHHHcC
Q 028884          187 LFEEIAKRLP  196 (202)
Q Consensus       187 ~~~~l~~~i~  196 (202)
                      +|++|++.+.
T Consensus       162 lf~~l~~~~~  171 (192)
T 2cjw_A          162 LFEGIVRQVR  171 (192)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998774

>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=99.97  E-value=2.1e-30  Score=182.96  Aligned_cols=161  Identities=18%  Similarity=0.330  Sum_probs=126.5

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|.+|+|||||+++|.++.+.. ..++.+.  ....+.+.   ...+.+||+||++.+...+..+++.+|++
T Consensus         5 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~-~~~t~~~--~~~~~~~~---~~~~~~~Dt~G~~~~~~~~~~~~~~~d~i   78 (171)
T 1upt_A            5 TREMRILILGLDGAGKTTILYRLQVGEVVT-TIPTIGF--NVETVTYK---NLKFQVWDLGGLTSIRPYWRCYYSNTDAV   78 (171)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCCC-CCCCSSE--EEEEEEET---TEEEEEEEECCCGGGGGGGGGGCTTCSEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCcc--ceEEEEEC---CEEEEEEECCCChhhhHHHHHHhccCCEE
Confidence            457999999999999999999999887643 3444433  33344443   27899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHH-----HHHcCCeEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEY-----AEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~s~~~~~~i  184 (202)
                      |+|+|++++.++.....|+..+... ...+.|+++|+||+|+.+...  ..+....     +...+++++++||+++.|+
T Consensus        79 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  156 (171)
T 1upt_A           79 IYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMT--SSEMANSLGLPALKDRKWQIFKTSATKGTGL  156 (171)
T ss_dssp             EEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCTTSCEEEEECCTTTCTTH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCCC--HHHHHHHhCchhccCCceEEEECcCCCCcCH
Confidence            9999999999999988888776554 236899999999999866432  2222221     2234567999999999999


Q ss_pred             HHHHHHHHHHcCCCC
Q 028884          185 NQLFEEIAKRLPRPS  199 (202)
Q Consensus       185 ~~~~~~l~~~i~~~~  199 (202)
                      +++|++|.+.+.+++
T Consensus       157 ~~l~~~l~~~i~~~q  171 (171)
T 1upt_A          157 DEAMEWLVETLKSRQ  171 (171)
T ss_dssp             HHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhhcC
Confidence            999999999987653

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=99.97  E-value=7.3e-31  Score=189.48  Aligned_cols=166  Identities=19%  Similarity=0.245  Sum_probs=130.5

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC-----------ccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS-----------KVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA   97 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   97 (202)
                      .....+||+|+|.+|+|||||++.+.+. +...+           .++.+.++....+...++..+.+.+||+||++.+.
T Consensus        10 ~~~~~~ki~vvG~~~~GKssL~~~l~~~-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~   88 (198)
T 3t1o_A           10 NREINFKIVYYGPGLSGKTTNLKWIYSK-VPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYN   88 (198)
T ss_dssp             TTEEEEEEEEECSTTSSHHHHHHHHHHT-SCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCS
T ss_pred             ccccccEEEEECCCCCCHHHHHHHHHhh-ccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHHH
Confidence            3457899999999999999999766653 33322           12332333222221234456899999999999999


Q ss_pred             hcccccccCccEEEEEEeCC------ChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC
Q 028884           98 ALAPLYYRGAAVAVVVYDIT------SPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM  171 (202)
Q Consensus        98 ~~~~~~~~~~d~~i~v~d~~------~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~  171 (202)
                      .++..+++.+|++|+|||++      +..++..+..|+..+. ....+.|+++|+||+|+.+.  +..+++..++...++
T Consensus        89 ~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~-~~~~~~piilv~NK~Dl~~~--~~~~~~~~~~~~~~~  165 (198)
T 3t1o_A           89 ASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYG-LTLDDVPIVIQVNKRDLPDA--LPVEMVRAVVDPEGK  165 (198)
T ss_dssp             HHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTT-CCTTSSCEEEEEECTTSTTC--CCHHHHHHHHCTTCC
T ss_pred             HHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhc-cccCCCCEEEEEEchhcccc--cCHHHHHHHHHhcCC
Confidence            99999999999999999999      5567777778877773 23578999999999998654  677888889988999


Q ss_pred             -eEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          172 -FFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       172 -~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                       +++++||++|.|++++|++|++.+.++
T Consensus       166 ~~~~~~Sa~~~~gv~~l~~~l~~~i~~~  193 (198)
T 3t1o_A          166 FPVLEAVATEGKGVFETLKEVSRLVLAR  193 (198)
T ss_dssp             SCEEECBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             ceEEEEecCCCcCHHHHHHHHHHHHHHH
Confidence             999999999999999999999987654

>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=99.97  E-value=7.5e-31  Score=184.21  Aligned_cols=158  Identities=19%  Similarity=0.356  Sum_probs=120.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|.+|+|||||+++|.++.+.. ..++.+.  ....+...   .+.+.+||+||++.+...+..+++.+|++++|
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~~--~~~~~~~~---~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v   74 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIGF--NVETVEYK---NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFV   74 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSSC--CEEEEECS---SCEEEEEECCCCGGGHHHHHHHTTTCSEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCce--eEEEEEEC---CEEEEEEEcCCChhhHHHHHHHhccCCEEEEE
Confidence            589999999999999999999877653 3444442  22333332   26899999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHH-----HHcCCeEEEeccCCCCCHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYA-----EKNGMFFIETSAKTADNINQL  187 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~s~~~~~~i~~~  187 (202)
                      ||++++.++..+..|+..+... ...+.|+++|+||+|+.+..  ...+.....     ...+++++++||++|.|++++
T Consensus        75 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  152 (164)
T 1r8s_A           75 VDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEG  152 (164)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCC--CHHHHHHHhCcccccCccEEEEEcccCCCcCHHHH
Confidence            9999999999998888877653 34689999999999986542  222222211     113457999999999999999


Q ss_pred             HHHHHHHcCCCC
Q 028884          188 FEEIAKRLPRPS  199 (202)
Q Consensus       188 ~~~l~~~i~~~~  199 (202)
                      |++|.+.+.+++
T Consensus       153 ~~~l~~~i~~~k  164 (164)
T 1r8s_A          153 LDWLSNQLRNQK  164 (164)
T ss_dssp             HHHHHHHC----
T ss_pred             HHHHHHHHhhcC
Confidence            999999987653

>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=99.97  E-value=1.4e-29  Score=182.17  Aligned_cols=162  Identities=19%  Similarity=0.276  Sum_probs=126.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCC-CCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQ-FDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      .+.++|+|+|.+|+|||||+++|.+.. +.....++.+  .....+.+.+   +.+.+||+||++.+...+..+++.+|+
T Consensus        19 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~--~~~~~~~~~~---~~~~l~Dt~G~~~~~~~~~~~~~~~d~   93 (190)
T 2h57_A           19 SKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKSSS---LSFTVFDMSGQGRYRNLWEHYYKEGQA   93 (190)
T ss_dssp             --CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSS--EEEEEEECSS---CEEEEEEECCSTTTGGGGGGGGGGCSE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccc--eeEEEEEECC---EEEEEEECCCCHHHHHHHHHHHhcCCE
Confidence            457999999999999999999999877 3444444444  3344444432   689999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCC---CCCeEEEEEeCCCCCCCCCCChHHHHHHHH-----HcCCeEEEeccCCC
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGS---PDIVMALVGNKADLHEKREVPAQDGIEYAE-----KNGMFFIETSAKTA  181 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~~~  181 (202)
                      +|+|||++++.++..+..|+..+.....   .+.|+++|+||+|+.+.  ...++......     ..+++++++||+++
T Consensus        94 ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  171 (190)
T 2h57_A           94 IIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDA--VTSVKVSQLLCLENIKDKPWHICASDAIKG  171 (190)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTT
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccC--CCHHHHHHHhChhhccCCceEEEEccCCCC
Confidence            9999999999999999889888776533   58999999999998653  33444444442     23568999999999


Q ss_pred             CCHHHHHHHHHHHcCCCC
Q 028884          182 DNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       182 ~~i~~~~~~l~~~i~~~~  199 (202)
                      .|++++|++|.+.+.+-+
T Consensus       172 ~gi~~l~~~l~~~i~~~k  189 (190)
T 2h57_A          172 EGLQEGVDWLQDQIQTVK  189 (190)
T ss_dssp             BTHHHHHHHHHHHC----
T ss_pred             cCHHHHHHHHHHHHHHhc
Confidence            999999999999987643

>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=99.97  E-value=4e-29  Score=179.03  Aligned_cols=160  Identities=19%  Similarity=0.245  Sum_probs=127.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|.+|+|||||+++|.++. ...+.++.+..  ...+.+.  . ..+.+||+||++.+...+..+++.+|++
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~~--~~~~~~~--~-~~~~~~Dt~G~~~~~~~~~~~~~~~d~i   89 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLGFN--IKTLEHR--G-FKLNIWDVGGQKSLRSYWRNYFESTDGL   89 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSSEE--EEEEEET--T-EEEEEEEECCSHHHHTTGGGGCTTCSEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCccc--eEEEEEC--C-EEEEEEECCCCHhHHHHHHHHhcCCCEE
Confidence            567999999999999999999999877 44445554433  3344443  2 7899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH-----HcCCeEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAE-----KNGMFFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~~~~~i  184 (202)
                      ++|+|++++.++..+..|+..+... ...+.|+++|+||+|+.+...  ..+......     ..+++++++||+++.|+
T Consensus        90 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  167 (186)
T 1ksh_A           90 IWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALS--CNAIQEALELDSIRSHHWRIQGCSAVTGEDL  167 (186)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCCC--HHHHHHHhChhhccCCceEEEEeeCCCCCCH
Confidence            9999999999999998888877654 346799999999999866432  233322221     24567999999999999


Q ss_pred             HHHHHHHHHHcCCC
Q 028884          185 NQLFEEIAKRLPRP  198 (202)
Q Consensus       185 ~~~~~~l~~~i~~~  198 (202)
                      +++|++|.+.+.++
T Consensus       168 ~~l~~~l~~~i~~~  181 (186)
T 1ksh_A          168 LPGIDWLLDDISSR  181 (186)
T ss_dssp             HHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999988664

>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=99.97  E-value=3.7e-29  Score=180.14  Aligned_cols=157  Identities=19%  Similarity=0.264  Sum_probs=124.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+++|++|+|||||+++|.++.+.. +.++....  ...+.+.+   +.+.+||+||++.++..+..+++.+|++
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~~-~~~t~~~~--~~~~~~~~---~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   94 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLAT-LQPTWHPT--SEELAIGN---IKFTTFDLGGHIQARRLWKDYFPEVNGI   94 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCCSCE--EEEEEETT---EEEEEEECCCSGGGTTSGGGGCTTCCEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCc-cccCCCCC--eEEEEECC---EEEEEEECCCCHHHHHHHHHHHhcCCEE
Confidence            456899999999999999999999987643 33444443  34444443   7899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH------------cCCeEEEec
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEK------------NGMFFIETS  177 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~------------~~~~~~~~s  177 (202)
                      ++|||++++.++..+..|+..+... ...+.|+++|+||+|+.+  ....++..+....            .+++++++|
T Consensus        95 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  172 (190)
T 1m2o_B           95 VFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCS  172 (190)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT--CCCHHHHHHHTTCSSCCC---CCSSCCEEEEECB
T ss_pred             EEEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC--CCCHHHHHHHhCCccccccccccccceEEEEEeE
Confidence            9999999999999999998887654 346799999999999865  3445555554432            346799999


Q ss_pred             cCCCCCHHHHHHHHHHHc
Q 028884          178 AKTADNINQLFEEIAKRL  195 (202)
Q Consensus       178 ~~~~~~i~~~~~~l~~~i  195 (202)
                      |++|.|++++|++|.+.+
T Consensus       173 a~~g~gi~~l~~~l~~~l  190 (190)
T 1m2o_B          173 VVMRNGYLEAFQWLSQYI  190 (190)
T ss_dssp             TTTTBSHHHHHHHHHTTC
T ss_pred             CCcCCCHHHHHHHHHhhC
Confidence            999999999999998754

>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=99.97  E-value=2.3e-30  Score=186.70  Aligned_cols=162  Identities=17%  Similarity=0.347  Sum_probs=120.7

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ...+.++|+|+|.+|+|||||+++|.++.+.. ..++.+  .....+...  . +.+.+||+||.+.+...+..+++.+|
T Consensus        25 ~~~~~~ki~v~G~~~vGKSsLi~~l~~~~~~~-~~~t~~--~~~~~~~~~--~-~~~~i~Dt~G~~~~~~~~~~~~~~~d   98 (192)
T 2b6h_A           25 FGKKQMRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG--FNVETVEYK--N-ICFTVWDVGGQDKIRPLWRHYFQNTQ   98 (192)
T ss_dssp             TTTSCEEEEEEESTTSSHHHHHHHHCSSCCEE-EEEETT--EEEEEEEET--T-EEEEEEECC-----CTTHHHHHHTCC
T ss_pred             ccCCccEEEEECCCCCCHHHHHHHHHhCCccc-cCCcCc--eeEEEEEEC--C-EEEEEEECCCCHhHHHHHHHHhccCC
Confidence            34568999999999999999999999877542 333333  333333332  2 78999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHH-----HHcCCeEEEeccCCCC
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYA-----EKNGMFFIETSAKTAD  182 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~s~~~~~  182 (202)
                      ++|+|||++++.++..+..|+..+... ...+.|+++|+||+|+.+..  ...+.....     ...+++++++||++|.
T Consensus        99 ~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~  176 (192)
T 2b6h_A           99 GLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAM--PVSELTDKLGLQHLRSRTWYVQATCATQGT  176 (192)
T ss_dssp             EEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTB
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCC--CHHHHHHHhCcccccCCceEEEECcCCCcC
Confidence            999999999999999998888877653 34579999999999986542  222222211     1234579999999999


Q ss_pred             CHHHHHHHHHHHcCCC
Q 028884          183 NINQLFEEIAKRLPRP  198 (202)
Q Consensus       183 ~i~~~~~~l~~~i~~~  198 (202)
                      |++++|++|++.+.++
T Consensus       177 gi~~l~~~l~~~i~~q  192 (192)
T 2b6h_A          177 GLYDGLDWLSHELSKR  192 (192)
T ss_dssp             THHHHHHHHHHHTTTC
T ss_pred             CHHHHHHHHHHHHhcC
Confidence            9999999999998764

>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=99.97  E-value=2.7e-29  Score=181.99  Aligned_cols=157  Identities=16%  Similarity=0.204  Sum_probs=120.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+++|++|+|||||+++|.++.+. .+.++....  ...+.+.+   +.+.+|||||++.++..+..+++.+|++
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~--~~~~~~~~---~~l~i~Dt~G~~~~~~~~~~~~~~~d~~   96 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPT--SEELTIAG---MTFTTFDLGGHIQARRVWKNYLPAINGI   96 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCS--CEEEEETT---EEEEEEEECC----CCGGGGGGGGCSEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCce--eEEEEECC---EEEEEEECCCcHhhHHHHHHHHhcCCEE
Confidence            45689999999999999999999987764 233444333  23344433   7899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH-----------------cCCe
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEK-----------------NGMF  172 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----------------~~~~  172 (202)
                      ++|+|++++.++..+..|+..+... ...+.|+++|+||+|+.+  .+..++...++..                 .+++
T Consensus        97 i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  174 (198)
T 1f6b_A           97 VFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLE  174 (198)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEE
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc--cCCHHHHHHHhCcccccccccccccccccCceEE
Confidence            9999999999999999998887654 346899999999999865  4455666665542                 3457


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHc
Q 028884          173 FIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       173 ~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      ++++||++|.|++++|++|.+.+
T Consensus       175 ~~~~SA~~g~gv~~l~~~l~~~l  197 (198)
T 1f6b_A          175 VFMCSVLKRQGYGEGFRWMAQYI  197 (198)
T ss_dssp             EEECBTTTTBSHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            99999999999999999998765

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.97  E-value=1.4e-28  Score=178.19  Aligned_cols=165  Identities=44%  Similarity=0.777  Sum_probs=140.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      +..++|+|+|++|+|||||+++|.+..+...+.++.+.......+.+. +..+.+.+||++|++.++..+..+++.+|++
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~-g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~   81 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVD-GKTIKAQIWDTAGQERYRRITSAYYRGAVGA   81 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEET-TEEEEEEEEECSSGGGTTCCCHHHHTTCSEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEEC-CEEEEEEEEECCCchhhhhhhHHHHhcCCEE
Confidence            457999999999999999999999988777777776666666666554 4447899999999999988888889999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      ++|+|.++..++..+..|+..+......+.|+++|+||+|+.+...+...++..++...++.++++|++++.|+.++|++
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~~d~Sal~~~~i~~l~~~  161 (199)
T 2f9l_A           82 LLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKN  161 (199)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            99999999999988888988877665567899999999999776667778888999999999999999999999999999


Q ss_pred             HHHHcC
Q 028884          191 IAKRLP  196 (202)
Q Consensus       191 l~~~i~  196 (202)
                      |.+.+.
T Consensus       162 l~~~~~  167 (199)
T 2f9l_A          162 ILTEIY  167 (199)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988764

>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=99.97  E-value=2.2e-29  Score=180.70  Aligned_cols=162  Identities=20%  Similarity=0.324  Sum_probs=123.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|.+|+|||||+++|.++.+. ...++.+..  ...+.+.+   +.+.+||+||++.+...+..+++.+|++
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~~~---~~~~i~Dt~G~~~~~~~~~~~~~~~d~i   87 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSN--VEEIVINN---TRFLMWDIGGQESLRSSWNTYYTNTEFV   87 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSS--CEEEEETT---EEEEEEECCC----CGGGHHHHTTCCEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccc--eEEEEECC---EEEEEEECCCCHhHHHHHHHHhcCCCEE
Confidence            45799999999999999999999987765 334444322  23333332   7899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH-----HcCCeEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAE-----KNGMFFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~~~~~i  184 (202)
                      |+|+|++++.++..+..|+..+... ...+.|+++|+||+|+.+.  ...++......     ..+++++++||++|.|+
T Consensus        88 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi  165 (187)
T 1zj6_A           88 IVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEGL  165 (187)
T ss_dssp             EEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTH
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCC--CCHHHHHHHhChhhhcCCCcEEEEccCCCCcCH
Confidence            9999999999999999998887654 2357999999999998653  23333333332     23568999999999999


Q ss_pred             HHHHHHHHHHcCCCCC
Q 028884          185 NQLFEEIAKRLPRPSP  200 (202)
Q Consensus       185 ~~~~~~l~~~i~~~~~  200 (202)
                      +++|++|++.+.+...
T Consensus       166 ~~l~~~l~~~~~~~~~  181 (187)
T 1zj6_A          166 CQGLEWMMSRLKIRLE  181 (187)
T ss_dssp             HHHHHHHHHHHCC---
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            9999999999987654

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.96  E-value=2.6e-29  Score=179.43  Aligned_cols=159  Identities=20%  Similarity=0.344  Sum_probs=121.8

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ...+.++|+|+|.+|+|||||+++|.++.+ ....++.+...  ..+.+.+   +.+.+||+||.+.+...+..+++.+|
T Consensus        17 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~--~~~~~~~---~~~~i~Dt~G~~~~~~~~~~~~~~~d   90 (181)
T 2h17_A           17 RGSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNV--EEIVINN---TRFLMWDIGGQESLRSSWNTYYTNTE   90 (181)
T ss_dssp             ----CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSC--EEEEETT---EEEEEEEESSSGGGTCGGGGGGTTCC
T ss_pred             CCCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceee--EEEEECC---EEEEEEECCCCHhHHHHHHHHhccCC
Confidence            334579999999999999999999999876 33334444332  3333332   78999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHH-----HHcCCeEEEeccCCCC
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYA-----EKNGMFFIETSAKTAD  182 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~s~~~~~  182 (202)
                      ++|+|||++++.++..+..|+..+... ...+.|+++|+||+|+.+.  ....+.....     ...+++++++||++|.
T Consensus        91 ~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~  168 (181)
T 2h17_A           91 FVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGE  168 (181)
T ss_dssp             EEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECBTTTTB
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccC--CCHHHHHHHhCcccccCCceEEEEccCCCCc
Confidence            999999999999999998888877654 2468999999999998653  2233333332     1234579999999999


Q ss_pred             CHHHHHHHHHHHc
Q 028884          183 NINQLFEEIAKRL  195 (202)
Q Consensus       183 ~i~~~~~~l~~~i  195 (202)
                      |++++|++|.+.+
T Consensus       169 gi~~l~~~l~~~l  181 (181)
T 2h17_A          169 GLCQGLEWMMSRL  181 (181)
T ss_dssp             THHHHHHHHHTC-
T ss_pred             CHHHHHHHHHhhC
Confidence            9999999998653

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=99.96  E-value=1.9e-28  Score=176.50  Aligned_cols=166  Identities=45%  Similarity=0.779  Sum_probs=144.2

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ..+..++|+|+|++|||||||+++|.+..+...+.++.+.+.....+.+. +..+.+.+||++|.+++...+..+++.++
T Consensus        25 ~~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~-g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~  103 (191)
T 1oix_A           25 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVD-GKTIKAQIWDTAGLERYRAITSAYYRGAV  103 (191)
T ss_dssp             CCSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEET-TEEEEEEEEEECSCCSSSCCCHHHHTTCC
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEEC-CEEEEEEEEECCCCcchhhhhHHHhhcCC
Confidence            34567999999999999999999999988877777887777766666664 44478889999999988888888889999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      ++++|+|..+..+++.+..|+..+......+.|+++++||+|+.+.......++..++...++.++++|++++.|+.++|
T Consensus       104 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~ld~Sald~~~v~~l~  183 (191)
T 1oix_A          104 GALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAF  183 (191)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHH
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            99999999999989888889887776555678999999999987766677788899999999999999999999999999


Q ss_pred             HHHHHHc
Q 028884          189 EEIAKRL  195 (202)
Q Consensus       189 ~~l~~~i  195 (202)
                      +.|.+.+
T Consensus       184 ~~l~~~i  190 (191)
T 1oix_A          184 QTILTEI  190 (191)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9998875

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=99.96  E-value=4e-29  Score=178.59  Aligned_cols=161  Identities=19%  Similarity=0.270  Sum_probs=122.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...++|+++|++|+|||||+++|.+..+. ...++.+.  ....+.+.  . +.+.+||+||++.+...+..+++.+|++
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~~-~~~~t~g~--~~~~~~~~--~-~~l~i~Dt~G~~~~~~~~~~~~~~~~~~   87 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDIS-HITPTQGF--NIKSVQSQ--G-FKLNVWDIGGQRKIRPYWRSYFENTDIL   87 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCCE-EEEEETTE--EEEEEEET--T-EEEEEEECSSCGGGHHHHHHHHTTCSEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCCC-cccCcCCe--EEEEEEEC--C-EEEEEEECCCCHHHHHHHHHHhCCCCEE
Confidence            45799999999999999999999987542 23334442  23334443  2 7899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHH-----HHcCCeEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYA-----EKNGMFFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~s~~~~~~i  184 (202)
                      ++|||++++.++..+..|+..+... ...+.|+++|+||+|+.+...  .++.....     ...+++++++||++|.|+
T Consensus        88 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi  165 (181)
T 1fzq_A           88 IYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGEGV  165 (181)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCCC--HHHHHHHhCchhccCCceEEEEccCCCCCCH
Confidence            9999999999999998888776543 346799999999999875432  22222221     123457999999999999


Q ss_pred             HHHHHHHHHHcCCCC
Q 028884          185 NQLFEEIAKRLPRPS  199 (202)
Q Consensus       185 ~~~~~~l~~~i~~~~  199 (202)
                      +++|++|.+.+.+++
T Consensus       166 ~~l~~~l~~~~~~~~  180 (181)
T 1fzq_A          166 QDGMNWVCKNVNAKK  180 (181)
T ss_dssp             HHHHHHHHHTC----
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999987654

>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=99.96  E-value=1.2e-29  Score=183.50  Aligned_cols=164  Identities=21%  Similarity=0.310  Sum_probs=121.6

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEE--EEecCCcEEEEEEEeCCChhhhhhcc---cc
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQT--IALQDSTTVKFEIWDTAGQERYAALA---PL  102 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~i~D~~G~~~~~~~~---~~  102 (202)
                      .+.++.+||+|+|.+|+|||||++++.+... ..  ++.+.......  ..+.++..+.+.+||++|++.|....   ..
T Consensus        15 ~~~~~~~ki~~vG~~~vGKTsLi~~l~~~~~-~~--~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~   91 (196)
T 3llu_A           15 YFQGSKPRILLMGLRRSGKSSIQKVVFHKMS-PN--ETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYEM   91 (196)
T ss_dssp             -----CCEEEEEESTTSSHHHHHHHHHSCCC-GG--GGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCHHH
T ss_pred             cccCcceEEEEECCCCCCHHHHHHHHHhcCC-Cc--ceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhccc
Confidence            4445689999999999999999998877432 22  23333322222  22333444789999999999887665   78


Q ss_pred             cccCccEEEEEEeCCCh--hHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC-------CCCChHHHHHHHH----Hc
Q 028884          103 YYRGAAVAVVVYDITSP--DSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK-------REVPAQDGIEYAE----KN  169 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~-------~~~~~~~~~~~~~----~~  169 (202)
                      +++.+|++|+|||++++  +++..+..|+..+... .++.|+++|+||+|+.+.       +.+...+...++.    ..
T Consensus        92 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~~~~  170 (196)
T 3llu_A           92 IFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKV-NPDMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKL  170 (196)
T ss_dssp             HHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHH-CTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTCTTS
T ss_pred             ccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhc-CCCCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhhhcC
Confidence            99999999999999997  6677777777776544 568999999999998652       2344445666676    67


Q ss_pred             CCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          170 GMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       170 ~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      +++++++||++ .|+.++|+.|++.+.
T Consensus       171 ~~~~~e~Sa~~-~~v~~~f~~l~~~li  196 (196)
T 3llu_A          171 HLSFYLTSIYD-HSIFEAFSKVVQKLI  196 (196)
T ss_dssp             CEEEEEECTTS-THHHHHHHHHHHHTC
T ss_pred             CcceEEEEech-hhHHHHHHHHHHHhC
Confidence            88999999999 999999999998763

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.96  E-value=5.9e-30  Score=183.89  Aligned_cols=162  Identities=22%  Similarity=0.342  Sum_probs=125.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++.++|+|+|.+|+|||||+++|..+.+.. ..++.+.  ....+...  . +.+.+||+||++.+...+..+++.+|++
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~-~~~t~~~--~~~~~~~~--~-~~~~~~Dt~G~~~~~~~~~~~~~~~d~i   93 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVT-TVPTVGV--NLETLQYK--N-ISFEVWDLGGQTGVRPYWRCYFSDTDAV   93 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEE-ECSSTTC--CEEEEEET--T-EEEEEEEECCSSSSCCCCSSSSTTCCEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCC-cCCCCce--EEEEEEEC--C-EEEEEEECCCCHhHHHHHHHHhhcCCEE
Confidence            467999999999999999999998876542 3334332  23334333  2 7899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHH-----HHHcCCeEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEY-----AEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~s~~~~~~i  184 (202)
                      |+|+|++++.++..+..|+..+... ...+.|+++|+||+|+.+...  ..+....     +...+++++++||+++.|+
T Consensus        94 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (189)
T 2x77_A           94 IYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAAS--EAEIAEQLGVSSIMNRTWTIVKSSSKTGDGL  171 (189)
T ss_dssp             EEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTH
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCCC--HHHHHHHhChhhccCCceEEEEccCCCccCH
Confidence            9999999999999988888777554 346899999999999865432  2222221     1223457999999999999


Q ss_pred             HHHHHHHHHHcCCCCC
Q 028884          185 NQLFEEIAKRLPRPSP  200 (202)
Q Consensus       185 ~~~~~~l~~~i~~~~~  200 (202)
                      +++|++|.+.+.+++.
T Consensus       172 ~~l~~~l~~~i~~~~~  187 (189)
T 2x77_A          172 VEGMDWLVERLREQGL  187 (189)
T ss_dssp             HHHHHHHHHHHHHTC-
T ss_pred             HHHHHHHHHHHHhccc
Confidence            9999999998876543

>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=99.93  E-value=1.3e-31  Score=194.88  Aligned_cols=162  Identities=31%  Similarity=0.617  Sum_probs=131.5

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|.+|+|||||+++|.++.+...+.++..... ...+.. ++..+.+.+||+||++.+...+..+++.+|++
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~i  105 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMV-DGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVF  105 (204)
Confidence            5689999999999999999999998877655555443333 223333 33447888999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCCC------------CCChHHHHHHHHHcCC-eEEEe
Q 028884          111 VVVYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEKR------------EVPAQDGIEYAEKNGM-FFIET  176 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~~~~  176 (202)
                      |+|||++++.++..+. .|+..+.... ++.|+++|+||+|+.+..            .+..++...++...++ +++++
T Consensus       106 ilv~D~~~~~s~~~~~~~~~~~l~~~~-~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~v  184 (204)
T 3th5_A          106 LICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLEC  184 (204)
Confidence            9999999999998886 7888776653 379999999999986542            4455666777777787 89999


Q ss_pred             ccCCCCCHHHHHHHHHHHc
Q 028884          177 SAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       177 s~~~~~~i~~~~~~l~~~i  195 (202)
                      ||++|.|++++|++|++.+
T Consensus       185 SA~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          185 SALTQRGLKTVFDEAIRAV  203 (204)
Confidence            9999999999999998765

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.96  E-value=3.2e-28  Score=189.09  Aligned_cols=165  Identities=30%  Similarity=0.593  Sum_probs=138.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...++|+++|.+|+|||||+++|.++.+...+.++..... ...+.. ++..+.+.+||+||.+.+...+..+++.+|++
T Consensus       153 ~~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~  230 (332)
T 2wkq_A          153 KELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMV-DGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVF  230 (332)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEE-TTEEEEEEEEEECCCGGGTTTGGGGCTTCSEE
T ss_pred             cceeEEEEECCCCCChHHHHHHHHhCCCCcccCCccccee-EEEEEE-CCEEEEEEEEeCCCchhhhHHHHHhccCCCEE
Confidence            3469999999999999999999999887666665554433 333343 44558889999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcCC-eEEEe
Q 028884          111 VVVYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNGM-FFIET  176 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~  176 (202)
                      ++|||++++.++..+. .|+..+.... .++|+++|+||+|+...            ..+...+...++...++ +++++
T Consensus       231 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  309 (332)
T 2wkq_A          231 LICFSLVSPASFHHVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLEC  309 (332)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC-TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHHhhC-CCCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEEEEe
Confidence            9999999999999886 7888887763 48999999999998653            45777888899999987 89999


Q ss_pred             ccCCCCCHHHHHHHHHHHcCCC
Q 028884          177 SAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       177 s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      ||++|.|++++|++|.+.+..+
T Consensus       310 Sa~~~~gi~~l~~~l~~~~~~~  331 (332)
T 2wkq_A          310 SALTQRGLKTVFDEAIRAVLCP  331 (332)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHC-
T ss_pred             cCCCCcCHHHHHHHHHHHHhcC
Confidence            9999999999999999988664

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.96  E-value=2e-29  Score=180.56  Aligned_cols=166  Identities=19%  Similarity=0.377  Sum_probs=121.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC--CCCCCCccccceeEEEEEEEec--CCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG--QFDPTSKVTVGASFLSQTIALQ--DSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      .++|+|+|++|+|||||+++|.+.  .+...+.++.+.+.....+...  ++..+.+.+||++|.+.+..++..+++.+|
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   81 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRA   81 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCc
Confidence            579999999999999999999985  3334445555555544443321  223478999999999999999999999999


Q ss_pred             EEEEEEeCCCh-hHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC---hHHHHHHHHHcCCe----EEEeccCC
Q 028884          109 VAVVVYDITSP-DSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP---AQDGIEYAEKNGMF----FIETSAKT  180 (202)
Q Consensus       109 ~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~---~~~~~~~~~~~~~~----~~~~s~~~  180 (202)
                      ++++|||++++ .++..+..|+..+... .++.|+++|+||+|+.+.....   ......++...+++    ++++||++
T Consensus        82 ~~i~v~d~~~~~~s~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  160 (184)
T 2zej_A           82 LYLAVYDLSKGQAEVDAMKPWLFNIKAR-ASSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATE  160 (184)
T ss_dssp             EEEEEEEGGGCHHHHHTHHHHHHHHHHH-CTTCEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCTTSCEEEEEEECCTTS
T ss_pred             EEEEEEeCCcchhHHHHHHHHHHHHHhh-CCCCcEEEEEECCCcccchhhHHHHHHHHHHHHHhcCCcchhheEEEeccc
Confidence            99999999997 5788899999988765 3578999999999986533221   22234455556676    89999999


Q ss_pred             CC-CHHHHHHHHHHHcCCCC
Q 028884          181 AD-NINQLFEEIAKRLPRPS  199 (202)
Q Consensus       181 ~~-~i~~~~~~l~~~i~~~~  199 (202)
                      +. ++.++++.|.+.+...+
T Consensus       161 ~~~~~~~l~~~i~~~~~~~~  180 (184)
T 2zej_A          161 ESDALAKLRKTIINESLNFK  180 (184)
T ss_dssp             CCHHHHHHHHHHHHHHHCC-
T ss_pred             CchhHHHHHHHHHHHHhccc
Confidence            97 99999999998876654

>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=99.96  E-value=1.3e-28  Score=175.84  Aligned_cols=159  Identities=22%  Similarity=0.362  Sum_probs=121.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.++|+|+|++|+|||||+++|.++.+ ....++.+..  ...+.+.+   ..+.+||+||.+.+...+..+++.+|++
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~~--~~~~~~~~---~~~~i~Dt~G~~~~~~~~~~~~~~~d~i   89 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFN--VETLSYKN---LKLNVWDLGGQTSIRPYWRCYYADTAAV   89 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTCC--EEEEEETT---EEEEEEEEC----CCTTGGGTTTTEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCccc--eEEEEECC---EEEEEEECCCCHhHHHHHHHHhccCCEE
Confidence            5679999999999999999999998766 3333444432  23334332   7899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcC-CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH-----cCCeEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHG-SPDIVMALVGNKADLHEKREVPAQDGIEYAEK-----NGMFFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~s~~~~~~i  184 (202)
                      ++|+|++++.++..+..|+..+.... ..+.|+++|+||+|+.+.  ....+.......     .+++++++||+++.|+
T Consensus        90 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi  167 (183)
T 1moz_A           90 IFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA--LSASEVSKELNLVELKDRSWSIVASSAIKGEGI  167 (183)
T ss_dssp             EEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC--CCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEEccCCCCcCH
Confidence            99999999999999988888876542 468999999999998653  223333333221     2347999999999999


Q ss_pred             HHHHHHHHHHcCC
Q 028884          185 NQLFEEIAKRLPR  197 (202)
Q Consensus       185 ~~~~~~l~~~i~~  197 (202)
                      +++|++|.+.+.+
T Consensus       168 ~~l~~~l~~~~~~  180 (183)
T 1moz_A          168 TEGLDWLIDVIKE  180 (183)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988754

>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=99.95  E-value=3.4e-27  Score=172.64  Aligned_cols=162  Identities=19%  Similarity=0.204  Sum_probs=113.5

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh-cccccccCccE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA-LAPLYYRGAAV  109 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~  109 (202)
                      .+.++|+|+|.+|+|||||+++|.++.+...+. +.......  +.+.+...+.+.+|||||++.+.. ++..+++.+|+
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~-~~~~~~~~--~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   81 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQT-SITDSSAI--YKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARA   81 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHHHHSCCCCBCC-CCSCEEEE--EECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcccccC-CcceeeEE--EEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCE
Confidence            457999999999999999999999988765554 33333322  444444347899999999999987 78888999999


Q ss_pred             EEEEEeCCChh-HHHHHHH-HHHHHHH--cCCCCCeEEEEEeCCCCCCCCCCCh--HHHHHHHH----------------
Q 028884          110 AVVVYDITSPD-SFNKAQY-WVKELQK--HGSPDIVMALVGNKADLHEKREVPA--QDGIEYAE----------------  167 (202)
Q Consensus       110 ~i~v~d~~~~~-s~~~~~~-~~~~i~~--~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~----------------  167 (202)
                      +|+|||+++.. ++..... |...+..  ....+.|+++|+||+|+........  ........                
T Consensus        82 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~s~~~~~  161 (214)
T 2fh5_B           82 VVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSS  161 (214)
T ss_dssp             EEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHCC---------
T ss_pred             EEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHHHHHHHHHHHHHHHhccchhccccccCC
Confidence            99999999853 4555544 4444433  2355799999999999876432111  01111111                


Q ss_pred             -----------------Hc--CCeEEEeccCCC------CCHHHHHHHHHHHc
Q 028884          168 -----------------KN--GMFFIETSAKTA------DNINQLFEEIAKRL  195 (202)
Q Consensus       168 -----------------~~--~~~~~~~s~~~~------~~i~~~~~~l~~~i  195 (202)
                                       .+  ++++++|||++|      .|++++|++|.+.+
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~~  214 (214)
T 2fh5_B          162 STAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKIA  214 (214)
T ss_dssp             ---CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHHC
T ss_pred             ccccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHhC
Confidence                             11  567999999999      99999999998764

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.95  E-value=1.2e-27  Score=168.41  Aligned_cols=154  Identities=20%  Similarity=0.199  Sum_probs=113.2

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh------hccccccc-
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA------ALAPLYYR-  105 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~-  105 (202)
                      .++|+++|++|+|||||+++|.+..+.....++.+.......+.+.+   ..+.+|||||...+.      .+...+++ 
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~---~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~   79 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG---EKFKVVDLPGVYSLTANSIDEIIARDYIIN   79 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT---EEEEEEECCCCSCSSSSSHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC---cEEEEEECCCcccCCCcchhHHHHHHHHhc
Confidence            58999999999999999999998765444444434333344444432   589999999987654      23344554 


Q ss_pred             -CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCH
Q 028884          106 -GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       106 -~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i  184 (202)
                       .+|++++|+|.++.+   ....|+..+..   .+.|+++|+||+|+.....+.. +...++..++++++++||++|.|+
T Consensus        80 ~~~~~~i~v~D~~~~~---~~~~~~~~~~~---~~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~SA~~~~~v  152 (165)
T 2wji_A           80 EKPDLVVNIVDATALE---RNLYLTLQLME---MGANLLLALNKMDLAKSLGIEI-DVDKLEKILGVKVVPLSAAKKMGI  152 (165)
T ss_dssp             HCCSEEEEEEETTCHH---HHHHHHHHHHH---TTCCEEEEEECHHHHHHTTCCC-CHHHHHHHHTSCEEECBGGGTBSH
T ss_pred             CCCCEEEEEecCCchh---HhHHHHHHHHh---cCCCEEEEEEchHhccccChhh-HHHHHHHHhCCCEEEEEcCCCCCH
Confidence             799999999999854   34457666654   3689999999999864333332 356677788899999999999999


Q ss_pred             HHHHHHHHHHcC
Q 028884          185 NQLFEEIAKRLP  196 (202)
Q Consensus       185 ~~~~~~l~~~i~  196 (202)
                      +++|++|.+.+.
T Consensus       153 ~~l~~~l~~~~~  164 (165)
T 2wji_A          153 EELKKAISIAVK  164 (165)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhh
Confidence            999999998874

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.95  E-value=8e-28  Score=186.75  Aligned_cols=162  Identities=19%  Similarity=0.352  Sum_probs=118.5

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ...+.++|+|+|.+|+|||||+++|.++.+... .++.....  ..+...  . +.+.+|||||++.+..++..+++.+|
T Consensus       161 ~~~~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~~~~--~~~~~~--~-~~l~i~Dt~G~~~~~~~~~~~~~~ad  234 (329)
T 3o47_A          161 FGKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIGFNV--ETVEYK--N-ISFTVWDVGGQDKIRPLWRHYFQNTQ  234 (329)
T ss_dssp             --CCSEEEEEEESTTSSHHHHHHHTCSSCCEEE-EEETTEEE--EEEEET--T-EEEEEEECC-----CCSHHHHHTTEE
T ss_pred             cccCcceEEEECCCCccHHHHHHHHhCCCCCCc-ccccceEE--EEEecC--c-EEEEEEECCCCHhHHHHHHHHhccCC
Confidence            345678999999999999999999998775332 23333332  223322  2 78999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH-----HcCCeEEEeccCCCC
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAE-----KNGMFFIETSAKTAD  182 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~~~~  182 (202)
                      ++|+|||++++.++..+..|+..+... ...++|++||+||+|+.+...  ..+......     ..+++++++||++|.
T Consensus       235 ~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~vSAk~g~  312 (329)
T 3o47_A          235 GLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRHRNWYIQATCATSGD  312 (329)
T ss_dssp             EEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTCTTCCSSCEEEEECBTTTTB
T ss_pred             EEEEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcccC--HHHHHHHhchhhhhcCCCEEEEEECCCCc
Confidence            999999999999999887777666443 346899999999999876432  222222221     124579999999999


Q ss_pred             CHHHHHHHHHHHcCCC
Q 028884          183 NINQLFEEIAKRLPRP  198 (202)
Q Consensus       183 ~i~~~~~~l~~~i~~~  198 (202)
                      |++++|++|++.+.++
T Consensus       313 gi~el~~~l~~~l~~~  328 (329)
T 3o47_A          313 GLYEGLDWLSNQLRNQ  328 (329)
T ss_dssp             THHHHHHHHHHHHTC-
T ss_pred             CHHHHHHHHHHHHHhc
Confidence            9999999999998765

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.95  E-value=1.5e-27  Score=169.41  Aligned_cols=160  Identities=14%  Similarity=0.177  Sum_probs=118.0

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      ..+.++|+|+|.+|+|||||+++|.+..+.....++.+.+.....+.+.+   ..+.+||+||++.+..++..++..+|+
T Consensus         5 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~l~Dt~G~~~~~~~~~~~~~~~d~   81 (178)
T 2lkc_A            5 VERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVND---KKITFLDTPGHEAFTTMRARGAQVTDI   81 (178)
T ss_dssp             CCCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETT---EEEEESCCCSSSSSSCSCCSSCCCCCE
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCC---ceEEEEECCCCHHHHHHHHHHHhhCCE
Confidence            34679999999999999999999999887766555555555444455443   468899999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc-------C--CeEEEeccCC
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN-------G--MFFIETSAKT  180 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-------~--~~~~~~s~~~  180 (202)
                      +|+|+|++++...... .++..+.   ..+.|+++|+||+|+....   ..+........       +  ++++++||++
T Consensus        82 ~i~v~d~~~~~~~~~~-~~l~~~~---~~~~p~ilv~nK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  154 (178)
T 2lkc_A           82 VILVVAADDGVMPQTV-EAINHAK---AANVPIIVAINKMDKPEAN---PDRVMQELMEYNLVPEEWGGDTIFCKLSAKT  154 (178)
T ss_dssp             EEEEEETTCCCCHHHH-HHHHHHG---GGSCCEEEEEETTTSSCSC---HHHHHHHHTTTTCCBTTTTSSEEEEECCSSS
T ss_pred             EEEEEECCCCCcHHHH-HHHHHHH---hCCCCEEEEEECccCCcCC---HHHHHHHHHhcCcChhHcCCcccEEEEecCC
Confidence            9999999884222211 1222222   3478999999999986531   22222222221       1  5799999999


Q ss_pred             CCCHHHHHHHHHHHcCCCC
Q 028884          181 ADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       181 ~~~i~~~~~~l~~~i~~~~  199 (202)
                      |.|++++|++|++.+...+
T Consensus       155 ~~gv~~l~~~l~~~~~~~~  173 (178)
T 2lkc_A          155 KEGLDHLLEMILLVSEMEE  173 (178)
T ss_dssp             SHHHHHHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHhhhhhc
Confidence            9999999999998776544

>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=99.95  E-value=8.9e-29  Score=185.89  Aligned_cols=169  Identities=22%  Similarity=0.335  Sum_probs=121.8

Q ss_pred             CCCCCCceeeEEEEcCC---------CCcHHHHHHHHHh---CCCCCCCcccc-ceeEEEEEEE-------------ecC
Q 028884           26 SSDAKNLRVKLVLLGDS---------GVGKSCIVLRFVR---GQFDPTSKVTV-GASFLSQTIA-------------LQD   79 (202)
Q Consensus        26 ~~~~~~~~~~i~v~G~~---------~~GKSsli~~l~~---~~~~~~~~~~~-~~~~~~~~~~-------------~~~   79 (202)
                      ......+.+||+|+|.+         |+|||||+++|.+   ..+...+.++. +.++....+.             ..+
T Consensus        12 ~~~~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~   91 (255)
T 3c5h_A           12 ENLYFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLED   91 (255)
T ss_dssp             TTSSCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC-----
T ss_pred             CCCCCCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccC
Confidence            33445668999999999         9999999999998   44444444332 2222111111             113


Q ss_pred             CcEEEEEEEe-----------------------CCChhhhhhccccccc---------------------CccEEEEEEe
Q 028884           80 STTVKFEIWD-----------------------TAGQERYAALAPLYYR---------------------GAAVAVVVYD  115 (202)
Q Consensus        80 ~~~~~~~i~D-----------------------~~G~~~~~~~~~~~~~---------------------~~d~~i~v~d  115 (202)
                      +..+.+.+||                       +.|+++|..++..+++                     ++|++|+|||
T Consensus        92 ~~~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D  171 (255)
T 3c5h_A           92 CVECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGID  171 (255)
T ss_dssp             ----CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEE
T ss_pred             CcEEEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEE
Confidence            4457899999                       5666666777777776                     7999999999


Q ss_pred             CCCh--hHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH-cCCeEEEeccCCCCCHHHHHHHH
Q 028884          116 ITSP--DSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEK-NGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       116 ~~~~--~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      ++++  .+++.+..|+..+... ...++|++||+||+|+.....+  ++...++.. .+++++++||+++.|++++|++|
T Consensus       172 ~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~~l  249 (255)
T 3c5h_A          172 VSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQVVETSARSNVNVDLAFSTL  249 (255)
T ss_dssp             CBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCEEECBTTTTBSHHHHHHHH
T ss_pred             CCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHH--HHHHHHHHhcCCCeEEEEECCCCCCHHHHHHHH
Confidence            9998  8999999999888654 3457999999999998654333  456667765 47889999999999999999999


Q ss_pred             HHHcC
Q 028884          192 AKRLP  196 (202)
Q Consensus       192 ~~~i~  196 (202)
                      ++.+.
T Consensus       250 ~~~l~  254 (255)
T 3c5h_A          250 VQLID  254 (255)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            98764

>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=99.95  E-value=9.1e-27  Score=172.17  Aligned_cols=162  Identities=16%  Similarity=0.125  Sum_probs=113.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCCh------hh----hhhcc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ------ER----YAALA  100 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~------~~----~~~~~  100 (202)
                      ...++|+|+|.+|+|||||+++|.+..+.....+..+...........+   ..+.+|||||.      +.    +.. +
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~---~~~~l~DtpG~~~~~~~~~~~~~~~~-~  102 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKL---NKYQIIDTPGLLDRAFENRNTIEMTT-I  102 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEETT---EEEEEEECTTTTTSCGGGCCHHHHHH-H
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecCC---CeEEEEECCCCcCcccchhhhHHHHH-H
Confidence            4579999999999999999999998765422222222222222222222   68999999998      32    222 2


Q ss_pred             cccccCccEEEEEEeCCChhHHH--HHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChH---HHHHHHHHcC--CeE
Q 028884          101 PLYYRGAAVAVVVYDITSPDSFN--KAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQ---DGIEYAEKNG--MFF  173 (202)
Q Consensus       101 ~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~---~~~~~~~~~~--~~~  173 (202)
                      ..+...+|++|+|||++++.++.  ....|+..+... ..+.|+++|+||+|+.+...+...   ....++...+  +++
T Consensus       103 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (228)
T 2qu8_A          103 TALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSV-FSNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKF  181 (228)
T ss_dssp             HHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTC-C-CCCEEEEEECGGGCC--CCCHHHHHHHHHHHHHCCSCEEE
T ss_pred             HHhhccccEEEEEEecccccCcchHHHHHHHHHHHHh-hcCCcEEEEEeCcccCCchhhHHHHHHHHHHHHHhcCCCceE
Confidence            33467789999999999987654  234565555543 347899999999999776555543   3455666666  889


Q ss_pred             EEeccCCCCCHHHHHHHHHHHcCC
Q 028884          174 IETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       174 ~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      +++||++|.|++++|++|++.+.+
T Consensus       182 ~~~SA~~g~gi~~l~~~l~~~i~~  205 (228)
T 2qu8_A          182 SSFSTLTGVGVEQAKITACELLKN  205 (228)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             EEEecccCCCHHHHHHHHHHHHHH
Confidence            999999999999999999988754

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.95  E-value=8.2e-27  Score=179.57  Aligned_cols=161  Identities=22%  Similarity=0.343  Sum_probs=125.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCC---CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhh-----hhccccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDP---TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY-----AALAPLY  103 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-----~~~~~~~  103 (202)
                      ..+||+++|.+|+|||||+++|+++....   ...++.....  ..+.+. +. +.+.+||+||++.+     ...+..+
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~--~~~~~~-~~-~~l~i~Dt~G~~~~~~~~~~~~~~~~   77 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEH--SHLRFL-GN-MTLNLWDCGGQDVFMENYFTKQKDHI   77 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEE--EEEEET-TT-EEEEEEEECCSHHHHHHHHTTTHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEE--EEEEeC-Cc-eEEEEEECCCcHHHhhhhhhhHHHHH
Confidence            46899999999999999999999874322   2233333333  333332 33 79999999999988     6788888


Q ss_pred             ccCccEEEEEEeCCChhHHHHHHHHHHHHHHc--CCCCCeEEEEEeCCCCCC--CCC----CChHHHHHHHHHcC---Ce
Q 028884          104 YRGAAVAVVVYDITSPDSFNKAQYWVKELQKH--GSPDIVMALVGNKADLHE--KRE----VPAQDGIEYAEKNG---MF  172 (202)
Q Consensus       104 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~--~~~~~p~ivv~nK~D~~~--~~~----~~~~~~~~~~~~~~---~~  172 (202)
                      ++.+|++|+|||++++.++..+..|+..+...  ..+++|+++|+||+|+.+  .+.    +..+++..++..++   ++
T Consensus        78 ~~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~~  157 (307)
T 3r7w_A           78 FQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLI  157 (307)
T ss_dssp             HTTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSCE
T ss_pred             hccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCeE
Confidence            99999999999999999999887775554332  156899999999999876  332    44567778888886   78


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          173 FIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       173 ~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      ++++||++ .++.++|..++..+..
T Consensus       158 ~~~tSa~~-~~i~e~~~~iv~~li~  181 (307)
T 3r7w_A          158 GFPTSIWD-ESLYKAWSQIVCSLIP  181 (307)
T ss_dssp             EEECCTTS-SHHHHHHHHHHHTTCS
T ss_pred             EEEeeecC-ChHHHHHHHHHHHHcC
Confidence            99999999 8999999999887754

>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=99.94  E-value=1.3e-26  Score=167.09  Aligned_cols=160  Identities=18%  Similarity=0.183  Sum_probs=108.1

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCC----------hhhhhhc
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG----------QERYAAL   99 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~   99 (202)
                      ....++|+|+|.+|+|||||+++|.+..+.....++.+.......... +.   .+.+||+||          .+.+..+
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~-~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~   95 (195)
T 1svi_A           20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYII-ND---ELHFVDVPGYGFAKVSKSEREAWGRM   95 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEE-TT---TEEEEECCCBCCCSSCHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEE-CC---cEEEEECCCCCccccCHHHHHHHHHH
Confidence            346799999999999999999999988654444433333332222333 22   589999999          7777777


Q ss_pred             ccccccCc---cEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCCh--HHHHH-HHHHcCCeE
Q 028884          100 APLYYRGA---AVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPA--QDGIE-YAEKNGMFF  173 (202)
Q Consensus       100 ~~~~~~~~---d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~-~~~~~~~~~  173 (202)
                      +..+++.+   |++++|+|++++.++.... ++..+..   .+.|+++|+||+|+........  ++... +....+.++
T Consensus        96 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  171 (195)
T 1svi_A           96 IETYITTREELKAVVQIVDLRHAPSNDDVQ-MYEFLKY---YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDEL  171 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHH-HHHHHHH---TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSEE
T ss_pred             HHHHHhhhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChHHHHHHHHHHHHHHcccCCCce
Confidence            77777766   9999999999876665432 2233332   4789999999999876443321  12222 222246789


Q ss_pred             EEeccCCCCCHHHHHHHHHHHcCC
Q 028884          174 IETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       174 ~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      +++||+++.|++++|++|.+.+.+
T Consensus       172 ~~~Sa~~~~gv~~l~~~l~~~l~~  195 (195)
T 1svi_A          172 ILFSSETKKGKDEAWGAIKKMINR  195 (195)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHTC
T ss_pred             EEEEccCCCCHHHHHHHHHHHhcC
Confidence            999999999999999999988753

>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=99.94  E-value=1.4e-25  Score=172.76  Aligned_cols=167  Identities=17%  Similarity=0.108  Sum_probs=125.7

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh----------hh
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER----------YA   97 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~   97 (202)
                      .+..+.-.|+++|.+|+|||||+|+|++..+........++......+...+.. ..+.+|||||...          +.
T Consensus         5 ~~~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~~~-~~i~lvDTPG~~~~~~~~~l~~~~~   83 (308)
T 3iev_A            5 HHHMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNE-AQIIFLDTPGIYEPKKSDVLGHSMV   83 (308)
T ss_dssp             --CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTT-EEEEEEECCCCCCCCTTCHHHHHHH
T ss_pred             CCCCCCCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecCCC-CeEEEEECcCCCccccchhHHHHHH
Confidence            344567899999999999999999999988754433332222222222222212 6899999999743          33


Q ss_pred             hcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcC--CeEEE
Q 028884           98 ALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNG--MFFIE  175 (202)
Q Consensus        98 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~  175 (202)
                      ..+..+++.+|++++|+|++++.++.....|+..+...   +.|+++|+||+|+.............+....+  .++++
T Consensus        84 ~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~~---~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~~  160 (308)
T 3iev_A           84 EIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPL---NKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVP  160 (308)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGGG---CCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEEE
T ss_pred             HHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHhc---CCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEEE
Confidence            56677788999999999999987777777777777653   68999999999987444555566666777765  77999


Q ss_pred             eccCCCCCHHHHHHHHHHHcCCC
Q 028884          176 TSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       176 ~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      +||++|.|++++|++|.+.+.+.
T Consensus       161 vSA~~g~gv~~L~~~l~~~l~~~  183 (308)
T 3iev_A          161 ISALKGANLDELVKTILKYLPEG  183 (308)
T ss_dssp             CBTTTTBSHHHHHHHHHHHSCBC
T ss_pred             EeCCCCCCHHHHHHHHHHhCccC
Confidence            99999999999999999998764

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.94  E-value=1.6e-26  Score=165.62  Aligned_cols=158  Identities=20%  Similarity=0.191  Sum_probs=119.5

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh------hccccccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA------ALAPLYYR  105 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~  105 (202)
                      +.++|+++|++|+|||||+++|.+..+.....++.+.......+...+   ..+.+|||||...+.      .++..++.
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~---~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   82 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG---EKFKVVDLPGVYSLTANSIDEIIARDYII   82 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT---EEEEEEECCCCSCCSSSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC---cEEEEEECCCcCccccccHHHHHHHHHHh
Confidence            568999999999999999999998654333344444444444454433   689999999987653      33444554


Q ss_pred             --CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCC
Q 028884          106 --GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADN  183 (202)
Q Consensus       106 --~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~  183 (202)
                        .+|++++|+|.++   ++....|+..+..   .+.|+++|+||+|+.....+. .+...++...+++++++|++++.|
T Consensus        83 ~~~~~~~i~v~d~~~---~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~~~  155 (188)
T 2wjg_A           83 NEKPDLVVNIVDATA---LERNLYLTLQLME---MGANLLLALNKMDLAKSLGIE-IDVDKLEKILGVKVVPLSAAKKMG  155 (188)
T ss_dssp             HHCCSEEEEEEEGGG---HHHHHHHHHHHHT---TTCCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBGGGTBS
T ss_pred             ccCCCEEEEEecchh---HHHHHHHHHHHHh---cCCCEEEEEEhhhccccccch-HHHHHHHHHhCCCeEEEEecCCCC
Confidence              4899999999876   4556667776654   478999999999986543333 346677778889999999999999


Q ss_pred             HHHHHHHHHHHcCCCC
Q 028884          184 INQLFEEIAKRLPRPS  199 (202)
Q Consensus       184 i~~~~~~l~~~i~~~~  199 (202)
                      ++++|++|++.+....
T Consensus       156 v~~l~~~i~~~~~~~~  171 (188)
T 2wjg_A          156 IEELKKAISIAVKDKK  171 (188)
T ss_dssp             HHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHHHhcc
Confidence            9999999999887654

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.94  E-value=2.5e-26  Score=160.45  Aligned_cols=150  Identities=21%  Similarity=0.168  Sum_probs=104.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChhh-------hhhccccccc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER-------YAALAPLYYR  105 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~  105 (202)
                      .+|+++|.+|+|||||+++|.+..... ...+..+.+.....+...+   ..+.+||+||...       +...+..+++
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   78 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDR---GRFLLVDTGGLWSGDKWEKKIQEKVDRALE   78 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETT---EEEEEEECGGGCSSSSCCHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCC---ceEEEEECCCCCCccchHHHHHHHHHHHHH
Confidence            589999999999999999999876432 2223333334344444433   4789999999876       4455667788


Q ss_pred             CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC-eEEEeccCCCCCH
Q 028884          106 GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM-FFIETSAKTADNI  184 (202)
Q Consensus       106 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~s~~~~~~i  184 (202)
                      .+|++++|+|.+++.+... ..+...+..   .+.|+++|+||+|+.+..    ++...++ ..++ +++++||+++.|+
T Consensus        79 ~~~~~i~v~d~~~~~~~~~-~~~~~~~~~---~~~p~ilv~nK~Dl~~~~----~~~~~~~-~~~~~~~~~~Sa~~~~gv  149 (161)
T 2dyk_A           79 DAEVVLFAVDGRAELTQAD-YEVAEYLRR---KGKPVILVATKVDDPKHE----LYLGPLY-GLGFGDPIPTSSEHARGL  149 (161)
T ss_dssp             TCSEEEEEEESSSCCCHHH-HHHHHHHHH---HTCCEEEEEECCCSGGGG----GGCGGGG-GGSSCSCEECBTTTTBSH
T ss_pred             hCCEEEEEEECCCcccHhH-HHHHHHHHh---cCCCEEEEEECcccccch----HhHHHHH-hCCCCCeEEEecccCCCh
Confidence            9999999999998643322 122222332   368899999999986542    2233344 5566 7999999999999


Q ss_pred             HHHHHHHHHHc
Q 028884          185 NQLFEEIAKRL  195 (202)
Q Consensus       185 ~~~~~~l~~~i  195 (202)
                      +++|++|.+.+
T Consensus       150 ~~l~~~l~~~l  160 (161)
T 2dyk_A          150 EELLEAIWERL  160 (161)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHhC
Confidence            99999999876

>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=99.94  E-value=8.4e-27  Score=167.24  Aligned_cols=157  Identities=24%  Similarity=0.242  Sum_probs=115.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCC-----------hhhhhhcccc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG-----------QERYAALAPL  102 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G-----------~~~~~~~~~~  102 (202)
                      ++|+|+|.+|+|||||+++|.+..+.....++.+.....  +...     .+.+||+||           ++.+...+..
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~~~~~--~~~~-----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   74 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKIIE--IEWK-----NHKIIDMPGFGFMMGLPKEVQERIKDEIVH   74 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSCEE--EEET-----TEEEEECCCBSCCTTSCHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCccceeEE--EecC-----CEEEEECCCccccccCCHHHHHHHHHHHHH
Confidence            689999999999999999999988765555544433322  2222     588999999           6777777777


Q ss_pred             cccC-ccEEEEEEeCCChhHHHHH-HHHHHH---------HHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC
Q 028884          103 YYRG-AAVAVVVYDITSPDSFNKA-QYWVKE---------LQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM  171 (202)
Q Consensus       103 ~~~~-~d~~i~v~d~~~~~s~~~~-~~~~~~---------i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~  171 (202)
                      +++. ++++++++++.+..++..+ ..|+..         +......+.|+++|+||+|+....   .++...++...++
T Consensus        75 ~~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~  151 (190)
T 2cxx_A           75 FIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV---QEVINFLAEKFEV  151 (190)
T ss_dssp             HHHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH---HHHHHHHHHHHTC
T ss_pred             HHHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH---HHHHHHHHHHhhh
Confidence            7776 6766666666666667665 555532         222223579999999999987644   5567777777776


Q ss_pred             e-------EEEeccCCCCCHHHHHHHHHHHcCCCCC
Q 028884          172 F-------FIETSAKTADNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       172 ~-------~~~~s~~~~~~i~~~~~~l~~~i~~~~~  200 (202)
                      +       ++++||++|.|++++|++|.+.+.+.+.
T Consensus       152 ~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~  187 (190)
T 2cxx_A          152 PLSEIDKVFIPISAKFGDNIERLKNRIFEVIRERQG  187 (190)
T ss_dssp             CGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC--
T ss_pred             hhhccCCcEEEEecCCCCCHHHHHHHHHHhcchhhc
Confidence            4       7999999999999999999998866543

>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=99.93  E-value=3.3e-26  Score=162.18  Aligned_cols=156  Identities=21%  Similarity=0.242  Sum_probs=110.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh----h--c--ccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA----A--L--APL  102 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~----~--~--~~~  102 (202)
                      +..+|+|+|.+|+|||||+++|.+..... ...++.+.+.....+.+.+   ..+.+|||||...+.    .  .  ...
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~---~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   79 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG---MPLHIIDTAGLREASDEVERIGIERAWQ   79 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT---EEEEEEECCCCSCCSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECC---eEEEEEECCCcccchhHHHHHHHHHHHH
Confidence            45899999999999999999999876432 2223333344444555443   468999999975321    1  1  123


Q ss_pred             cccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCC
Q 028884          103 YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD  182 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  182 (202)
                      +++.+|++++|+|++++.++. ...|+..+......++|+++|+||+|+.+....       ++...+.+++++||+++.
T Consensus        80 ~~~~ad~~i~v~D~~~~~s~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~-------~~~~~~~~~~~~SA~~g~  151 (172)
T 2gj8_A           80 EIEQADRVLFMVDGTTTDAVD-PAEIWPEFIARLPAKLPITVVRNKADITGETLG-------MSEVNGHALIRLSARTGE  151 (172)
T ss_dssp             HHHTCSEEEEEEETTTCCCCS-HHHHCHHHHHHSCTTCCEEEEEECHHHHCCCCE-------EEEETTEEEEECCTTTCT
T ss_pred             HHHhCCEEEEEEECCCCCCHH-HHHHHHHHHHhcccCCCEEEEEECccCCcchhh-------hhhccCCceEEEeCCCCC
Confidence            578899999999999887765 346777776665567999999999998543111       112245689999999999


Q ss_pred             CHHHHHHHHHHHcCCC
Q 028884          183 NINQLFEEIAKRLPRP  198 (202)
Q Consensus       183 ~i~~~~~~l~~~i~~~  198 (202)
                      |++++|++|.+.+...
T Consensus       152 gv~~l~~~l~~~~~~~  167 (172)
T 2gj8_A          152 GVDVLRNHLKQSMGFD  167 (172)
T ss_dssp             THHHHHHHHHHHC---
T ss_pred             CHHHHHHHHHHHhhhc
Confidence            9999999999987653

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.93  E-value=1.1e-26  Score=178.00  Aligned_cols=156  Identities=19%  Similarity=0.231  Sum_probs=116.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCC---CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh---cccccccCcc
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDP---TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA---LAPLYYRGAA  108 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---~~~~~~~~~d  108 (202)
                      ||+++|..|+|||||++++.++....   ...++.+.....  +   +. .+.+++|||+|+++|..   .+..++++++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~--v---~~-~v~LqIWDTAGQErf~~~~l~~~~yyr~a~   74 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH--F---ST-LIDLAVMELPGQLNYFEPSYDSERLFKSVG   74 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE--E---CS-SSCEEEEECCSCSSSCCCSHHHHHHHTTCS
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE--E---cc-EEEEEEEECCCchhccchhhhhhhhccCCC
Confidence            68999999999999999887654322   234555554432  2   22 27899999999999864   4678899999


Q ss_pred             EEEEEEeCCCh--hHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC-------CCCChHHHHHHHHH----cCCeEEE
Q 028884          109 VAVVVYDITSP--DSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK-------REVPAQDGIEYAEK----NGMFFIE  175 (202)
Q Consensus       109 ~~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~-------~~~~~~~~~~~~~~----~~~~~~~  175 (202)
                      ++|+|||+++.  ..+..+..|+..+... .+++|+++++||+|+..+       +.+..+++.+++..    .++.+++
T Consensus        75 ~~IlV~Ditd~~~~~~~~l~~~l~~~~~~-~~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~e  153 (331)
T 3r7w_B           75 ALVYVIDSQDEYINAITNLAMIIEYAYKV-NPSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYL  153 (331)
T ss_dssp             EEEEECCCSSCTTHHHHHHHHHHHHHHHH-CTTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEEC
T ss_pred             EEEEEEECCchHHHHHHHHHHHHHHHhhc-CCCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEE
Confidence            99999999997  3333334445555444 568999999999998754       23445555666664    5788999


Q ss_pred             eccCCCCCHHHHHHHHHHHcCCC
Q 028884          176 TSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       176 ~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      +||++ .|+.++|..|++.+.+.
T Consensus       154 TSAkd-~nV~eAFs~iv~~li~~  175 (331)
T 3r7w_B          154 TSIFD-HSIYEAFSRIVQKLIPE  175 (331)
T ss_dssp             CCSSS-SHHHHHHHHHHTTSSTT
T ss_pred             eccCC-CcHHHHHHHHHHHHHhh
Confidence            99998 58999999999988764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.93  E-value=2.2e-25  Score=160.36  Aligned_cols=159  Identities=21%  Similarity=0.256  Sum_probs=110.6

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCC----------hhhhh
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG----------QERYA   97 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~   97 (202)
                      .+....++|+|+|.+|+|||||+++|++...... .++.+.......... +.   .+.+||+||          .+.+.
T Consensus        18 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~-~~~~~~t~~~~~~~~-~~---~~~i~Dt~G~~~~~~~~~~~~~~~   92 (195)
T 3pqc_A           18 YPPPLKGEVAFVGRSNVGKSSLLNALFNRKIAFV-SKTPGKTRSINFYLV-NS---KYYFVDLPGYGYAKVSKKERMLWK   92 (195)
T ss_dssp             CCCCTTCEEEEEEBTTSSHHHHHHHHHTSCCSCC-CSSCCCCCCEEEEEE-TT---TEEEEECCCBSSSCCCHHHHHHHH
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHcCccccc-cCCCCCccCeEEEEE-CC---cEEEEECCCCccccCChhhHHHHH
Confidence            3445678999999999999999999999874332 223332222222222 22   478999999          66677


Q ss_pred             hcccccccCc---cEEEEEEeCCChhHH--HHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC--CChHHHHHHHHH-c
Q 028884           98 ALAPLYYRGA---AVAVVVYDITSPDSF--NKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE--VPAQDGIEYAEK-N  169 (202)
Q Consensus        98 ~~~~~~~~~~---d~~i~v~d~~~~~s~--~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~-~  169 (202)
                      .++..+++.+   |++++|+|.++..+.  ..+..|+.   ..   +.|+++|+||+|+.....  ...++...++.. .
T Consensus        93 ~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~---~~---~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~  166 (195)
T 3pqc_A           93 RLVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMK---SL---NIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYG  166 (195)
T ss_dssp             HHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHH---HT---TCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHH---Hc---CCCEEEEEEChhcCChHHHHHHHHHHHHHHhhcC
Confidence            7777666655   999999999876332  23333333   22   689999999999875432  222344455554 3


Q ss_pred             CCeEEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          170 GMFFIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       170 ~~~~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      .++++++||+++.|++++|++|.+.+.+
T Consensus       167 ~~~~~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          167 EYTIIPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             CSCEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             CCceEEEecCCCCCHHHHHHHHHHHhhc
Confidence            4689999999999999999999998875

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.93  E-value=4.1e-26  Score=187.82  Aligned_cols=167  Identities=20%  Similarity=0.370  Sum_probs=125.5

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEE------EEec-CCcEEEEEEEeCCChhhhhhccc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQT------IALQ-DSTTVKFEIWDTAGQERYAALAP  101 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~------~~~~-~~~~~~~~i~D~~G~~~~~~~~~  101 (202)
                      .....+||+++|.+|+|||||+++|.+..+.....++.+.......      +... ++..+.+.+||+||++.+.....
T Consensus        37 ~~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~  116 (535)
T 3dpu_A           37 VHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQ  116 (535)
T ss_dssp             BCCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCH
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHH
Confidence            3456899999999999999999999998877666667666655432      1111 12247899999999999999999


Q ss_pred             ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCC
Q 028884          102 LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTA  181 (202)
Q Consensus       102 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~  181 (202)
                      .+++.+|++|+|+|+++.   +.+..|+..+.... ++.|+++|+||+|+.+...+..++...++...+++++++||++|
T Consensus       117 ~~l~~~d~ii~V~D~s~~---~~~~~~~~~l~~~~-~~~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g  192 (535)
T 3dpu_A          117 FFMTRSSVYMLLLDSRTD---SNKHYWLRHIEKYG-GKSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNG  192 (535)
T ss_dssp             HHHHSSEEEEEEECGGGG---GGHHHHHHHHHHHS-SSCCEEEEECCTTTCTTCCCCHHHHHHHCGGGTTCEEECCC---
T ss_pred             HHccCCcEEEEEEeCCCc---hhHHHHHHHHHHhC-CCCCEEEEEECCCcccccccCHHHHHHHHHhcCCceEEEecCcc
Confidence            999999999999999875   45677888887763 47899999999999877777788888888888999999999999


Q ss_pred             CCHHHHHHHHHHHcCCCC
Q 028884          182 DNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       182 ~~i~~~~~~l~~~i~~~~  199 (202)
                      .|++++++.|.+.+.+..
T Consensus       193 ~gi~eL~~~l~~~~~~~~  210 (535)
T 3dpu_A          193 DGVESIAKSLKSAVLHPD  210 (535)
T ss_dssp             --CTTHHHHHHHHHTCTT
T ss_pred             cCHHHHHHHHHHHHhccc
Confidence            999999999999887653

>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=99.93  E-value=1.3e-25  Score=168.69  Aligned_cols=156  Identities=19%  Similarity=0.191  Sum_probs=116.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhc------ccccc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAAL------APLYY  104 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~  104 (202)
                      .+.++|+++|.+|+|||||+|+|.+..+.....+..+.......+...+   ..+.+||+||...+...      ...++
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~---~~~~l~DtpG~~~~~~~~~~e~v~~~~~   79 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKG---YTINLIDLPGTYSLGYSSIDEKIARDYL   79 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT---EEEEEEECCCCSSCCSSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECC---eEEEEEECCCcCccCCCCHHHHHHHHHH
Confidence            3578999999999999999999998765433344444444444444322   68999999998765532      24444


Q ss_pred             --cCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCC
Q 028884          105 --RGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD  182 (202)
Q Consensus       105 --~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  182 (202)
                        ..+|++++|+|+++.++.   ..|+..+..   .+.|+++|+||+|+.+..... .+...++..++++++++||++|.
T Consensus        80 ~~~~~d~ii~V~D~t~~~~~---~~~~~~l~~---~~~pvilv~NK~Dl~~~~~i~-~~~~~l~~~lg~~vi~~SA~~g~  152 (258)
T 3a1s_A           80 LKGDADLVILVADSVNPEQS---LYLLLEILE---MEKKVILAMTAIDEAKKTGMK-IDRYELQKHLGIPVVFTSSVTGE  152 (258)
T ss_dssp             HHSCCSEEEEEEETTSCHHH---HHHHHHHHT---TTCCEEEEEECHHHHHHTTCC-BCHHHHHHHHCSCEEECCTTTCT
T ss_pred             hhcCCCEEEEEeCCCchhhH---HHHHHHHHh---cCCCEEEEEECcCCCCccchH-HHHHHHHHHcCCCEEEEEeeCCc
Confidence              579999999999986543   335555543   378999999999986544443 24677888889999999999999


Q ss_pred             CHHHHHHHHHHHcC
Q 028884          183 NINQLFEEIAKRLP  196 (202)
Q Consensus       183 ~i~~~~~~l~~~i~  196 (202)
                      |++++|++|.+.+.
T Consensus       153 gi~el~~~i~~~~~  166 (258)
T 3a1s_A          153 GLEELKEKIVEYAQ  166 (258)
T ss_dssp             THHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhh
Confidence            99999999998765

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.92  E-value=2.6e-25  Score=163.59  Aligned_cols=164  Identities=11%  Similarity=0.088  Sum_probs=108.9

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCC-CC-CCccccceeEEEEEEEecCCcEEEEEEEeCCC----------hhhhh
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQF-DP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAG----------QERYA   97 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~   97 (202)
                      ....++|+|+|.+|+|||||+++|++... .. ...+..+....  ...........+.+|||||          .+.+.
T Consensus        26 ~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~--~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~  103 (223)
T 4dhe_A           26 PTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHIN--YFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWE  103 (223)
T ss_dssp             CCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEE--EEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHH
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceE--EEEecCCCCCcEEEEcCCCCCcccCChhhHHHHH
Confidence            34579999999999999999999999763 12 22222222222  2223212225799999999          44555


Q ss_pred             hcccccccC---ccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC--hHHHHHHHHH----
Q 028884           98 ALAPLYYRG---AAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP--AQDGIEYAEK----  168 (202)
Q Consensus        98 ~~~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~----  168 (202)
                      ..+..+++.   +|++|+|+|.+++.+. ....++..+..   .+.|+++|+||+|+.......  ..........    
T Consensus       104 ~~~~~~~~~~~~~d~vi~v~d~~~~~~~-~~~~~~~~l~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~~  179 (223)
T 4dhe_A          104 QLLSSYLQTRPQLCGMILMMDARRPLTE-LDRRMIEWFAP---TGKPIHSLLTKCDKLTRQESINALRATQKSLDAYRDA  179 (223)
T ss_dssp             HHHHHHHHHCTTEEEEEEEEETTSCCCH-HHHHHHHHHGG---GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcCcCEEEEEEeCCCCCCH-HHHHHHHHHHh---cCCCEEEEEeccccCChhhHHHHHHHHHHHHHhhhhc
Confidence            555555554   7889999999976332 22445555544   468999999999986543221  1112222222    


Q ss_pred             ---cCCeEEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          169 ---NGMFFIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       169 ---~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                         ...+++++||+++.|++++|++|.+.+....
T Consensus       180 ~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~~  213 (223)
T 4dhe_A          180 GYAGKLTVQLFSALKRTGLDDAHALIESWLRPAA  213 (223)
T ss_dssp             TCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC---
T ss_pred             ccCCCCeEEEeecCCCcCHHHHHHHHHHhcCccC
Confidence               5678999999999999999999999987654

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.92  E-value=3.2e-25  Score=167.61  Aligned_cols=156  Identities=17%  Similarity=0.163  Sum_probs=114.1

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh------hccccccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA------ALAPLYYR  105 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~  105 (202)
                      +.++|+++|.+|+|||||+|+|.+........+..+.......  +..  ...+.+||+||...+.      .+...++.
T Consensus         2 ~~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~tv~~~~~~--~~~--~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~   77 (272)
T 3b1v_A            2 SMTEIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVERKSGL--VKK--NKDLEIQDLPGIYSMSPYSPEAKVARDYLL   77 (272)
T ss_dssp             -CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSSCCCCSCEEEE--CTT--CTTEEEEECCCCSCSSCSSHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCCcEEEEEEE--Eec--CCeEEEEECCCcCccCCCChHHHHHHHHHh
Confidence            3589999999999999999999987643333343333322222  222  2579999999987664      34455554


Q ss_pred             --CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCC
Q 028884          106 --GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADN  183 (202)
Q Consensus       106 --~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~  183 (202)
                        .+|++|+|+|+++.++   ...|...+..   .+.|+++|+||+|+.+..... .+...++..++++++++||++|.|
T Consensus        78 ~~~~d~vi~V~D~t~~e~---~~~~~~~l~~---~~~p~ilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~g  150 (272)
T 3b1v_A           78 SQRADSILNVVDATNLER---NLYLTTQLIE---TGIPVTIALNMIDVLDGQGKK-INVDKLSYHLGVPVVATSALKQTG  150 (272)
T ss_dssp             TTCCSEEEEEEEGGGHHH---HHHHHHHHHH---TCSCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBTTTTBS
T ss_pred             cCCCCEEEEEecCCchHh---HHHHHHHHHh---cCCCEEEEEEChhhCCcCCcH-HHHHHHHHHcCCCEEEEEccCCCC
Confidence              5999999999998643   3445555544   378999999999986543333 345677888899999999999999


Q ss_pred             HHHHHHHHHHHcCCC
Q 028884          184 INQLFEEIAKRLPRP  198 (202)
Q Consensus       184 i~~~~~~l~~~i~~~  198 (202)
                      ++++|++|.+.+...
T Consensus       151 i~el~~~i~~~~~~~  165 (272)
T 3b1v_A          151 VDQVVKKAAHTTTST  165 (272)
T ss_dssp             HHHHHHHHHHSCTTT
T ss_pred             HHHHHHHHHHHHhhc
Confidence            999999999987543

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=99.92  E-value=1.8e-25  Score=167.79  Aligned_cols=151  Identities=17%  Similarity=0.115  Sum_probs=113.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh----------ccccc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA----------LAPLY  103 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----------~~~~~  103 (202)
                      .+|+++|.+|+|||||+|+|.+........++.+.+.....+.+.+   ..+.+||+||...+..          ....+
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~---~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~   78 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGE---HLIEITDLPGVYSLVANAEGISQDEQIAAQS   78 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETT---EEEEEEECCCCSSCC------CHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECC---eEEEEEeCCCcccccccccCCCHHHHHHHHH
Confidence            4799999999999999999999765444445555555555555543   4899999999865543          44556


Q ss_pred             c--cCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCC
Q 028884          104 Y--RGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTA  181 (202)
Q Consensus       104 ~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~  181 (202)
                      +  ..+|++|+|+|+++.++...+.   ..+.   ..+.|+++|+||+|+.+..... .....+...++++++++||++|
T Consensus        79 ~~~~~~d~vi~VvDas~~~~~~~l~---~~l~---~~~~pvilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g  151 (256)
T 3iby_A           79 VIDLEYDCIINVIDACHLERHLYLT---SQLF---ELGKPVVVALNMMDIAEHRGIS-IDTEKLESLLGCSVIPIQAHKN  151 (256)
T ss_dssp             HHHSCCSEEEEEEEGGGHHHHHHHH---HHHT---TSCSCEEEEEECHHHHHHTTCE-ECHHHHHHHHCSCEEECBGGGT
T ss_pred             HhhCCCCEEEEEeeCCCchhHHHHH---HHHH---HcCCCEEEEEEChhcCCcCCcH-HHHHHHHHHcCCCEEEEECCCC
Confidence            6  7899999999999965444332   2233   3378999999999986543332 2345577788999999999999


Q ss_pred             CCHHHHHHHHHHH
Q 028884          182 DNINQLFEEIAKR  194 (202)
Q Consensus       182 ~~i~~~~~~l~~~  194 (202)
                      .|++++|++|.+.
T Consensus       152 ~gi~el~~~i~~~  164 (256)
T 3iby_A          152 IGIPALQQSLLHC  164 (256)
T ss_dssp             BSHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHhh
Confidence            9999999999887

>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=99.92  E-value=1.7e-25  Score=169.61  Aligned_cols=156  Identities=15%  Similarity=0.146  Sum_probs=115.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh----------cccc
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA----------LAPL  102 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----------~~~~  102 (202)
                      .++|+++|.+|+|||||+|+|.+........++.+.+.....+...+   ..+.+|||||...+..          .+..
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~---~~~~liDtpG~~~~~~~~~~~~~~e~i~~~   79 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTD---HQVTLVDLPGTYSLTTISSQTSLDEQIACH   79 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSS---CEEEEEECCCCSCSCC----CCHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCC---CceEEEECcCCCccccccccCCHHHHHHHH
Confidence            58999999999999999999999765444445555555555555443   4688999999766542          1222


Q ss_pred             cc--cCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCC
Q 028884          103 YY--RGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT  180 (202)
Q Consensus       103 ~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~  180 (202)
                      ++  +.+|++|+|+|+++.+....   |...+...   ++|+++|+||+|+.+..... .....++..++++++++||++
T Consensus        80 ~~~~~~~d~ii~VvD~~~~~~~~~---~~~~l~~~---~~p~ivv~NK~Dl~~~~~~~-~~~~~l~~~lg~~~i~~SA~~  152 (274)
T 3i8s_A           80 YILSGDADLLINVVDASNLERNLY---LTLQLLEL---GIPCIVALNMLDIAEKQNIR-IEIDALSARLGCPVIPLVSTR  152 (274)
T ss_dssp             HHHHTCCSEEEEEEEGGGHHHHHH---HHHHHHHH---TCCEEEEEECHHHHHHTTEE-ECHHHHHHHHTSCEEECCCGG
T ss_pred             HHhhcCCCEEEEEecCCChHHHHH---HHHHHHhc---CCCEEEEEECccchhhhhHH-HHHHHHHHhcCCCEEEEEcCC
Confidence            22  68999999999998654433   33334433   68999999999986543322 234667778899999999999


Q ss_pred             CCCHHHHHHHHHHHcCCC
Q 028884          181 ADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       181 ~~~i~~~~~~l~~~i~~~  198 (202)
                      |.|++++|++|.+.+...
T Consensus       153 g~gi~el~~~i~~~~~~~  170 (274)
T 3i8s_A          153 GRGIEALKLAIDRYKANE  170 (274)
T ss_dssp             GHHHHHHHHHHHTCCCCC
T ss_pred             CCCHHHHHHHHHHHHhcC
Confidence            999999999999988754

>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=99.91  E-value=1.5e-24  Score=164.28  Aligned_cols=158  Identities=22%  Similarity=0.190  Sum_probs=116.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh------cccccc-
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA------LAPLYY-  104 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~-  104 (202)
                      +.++|+++|++|+|||||+++|.+..+.....++.+.+.....+.+.+   ..+.+||+||...+..      .+..++ 
T Consensus         2 ~~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~---~~~~l~DtpG~~~~~~~~~~~~~~~~~~~   78 (271)
T 3k53_A            2 VLKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYRE---KEFLVVDLPGIYSLTAHSIDELIARNFIL   78 (271)
T ss_dssp             CCEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETT---EEEEEEECCCCSCCCSSCHHHHHHHHHHH
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECC---ceEEEEeCCCccccccCCHHHHHHHHhhh
Confidence            358999999999999999999998766444445555555555555433   4699999999876544      344444 


Q ss_pred             -cCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCC
Q 028884          105 -RGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADN  183 (202)
Q Consensus       105 -~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~  183 (202)
                       ..+|++++|+|+++..   ....|...+....  ..|+++|+||+|+.+...... ....+...++++++++|+++|.|
T Consensus        79 ~~~~d~vi~v~D~~~~~---~~~~~~~~~~~~~--~~p~ilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~~~~~Sa~~g~g  152 (271)
T 3k53_A           79 DGNADVIVDIVDSTCLM---RNLFLTLELFEME--VKNIILVLNKFDLLKKKGAKI-DIKKMRKELGVPVIPTNAKKGEG  152 (271)
T ss_dssp             TTCCSEEEEEEEGGGHH---HHHHHHHHHHHTT--CCSEEEEEECHHHHHHHTCCC-CHHHHHHHHSSCEEECBGGGTBT
T ss_pred             ccCCcEEEEEecCCcch---hhHHHHHHHHhcC--CCCEEEEEEChhcCcccccHH-HHHHHHHHcCCcEEEEEeCCCCC
Confidence             6799999999999863   3333444444331  389999999999754333222 26667778899999999999999


Q ss_pred             HHHHHHHHHHHcCCC
Q 028884          184 INQLFEEIAKRLPRP  198 (202)
Q Consensus       184 i~~~~~~l~~~i~~~  198 (202)
                      +.++|+.+.+.+...
T Consensus       153 i~~l~~~i~~~~~~~  167 (271)
T 3k53_A          153 VEELKRMIALMAEGK  167 (271)
T ss_dssp             HHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999887543

>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=99.91  E-value=2.9e-25  Score=162.85  Aligned_cols=144  Identities=15%  Similarity=0.227  Sum_probs=102.8

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCC---CccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccC
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPT---SKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRG  106 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~  106 (202)
                      ..+.++|+|+|++|+|||||+++|.+..+...   ..++.+..+          ....+.+||+||++.++..+..+++.
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~----------~~~~~~l~Dt~G~~~~~~~~~~~~~~   78 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY----------DGSGVTLVDFPGHVKLRYKLSDYLKT   78 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG----------GGSSCEEEECCCCGGGTHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe----------eCceEEEEECCCcHHHHHHHHHHHHh
Confidence            45679999999999999999999999876432   222222111          22579999999999998888888776


Q ss_pred             ----ccEEEEEEeCC-ChhHHHHHHHHHHHHHHc----CCCCCeEEEEEeCCCCCCCCCCC------hHHHHHHHHHcCC
Q 028884          107 ----AAVAVVVYDIT-SPDSFNKAQYWVKELQKH----GSPDIVMALVGNKADLHEKREVP------AQDGIEYAEKNGM  171 (202)
Q Consensus       107 ----~d~~i~v~d~~-~~~s~~~~~~~~~~i~~~----~~~~~p~ivv~nK~D~~~~~~~~------~~~~~~~~~~~~~  171 (202)
                          +|++|+|+|++ ++.++.....|+..+...    ...++|+++|+||+|+.......      ..+...++...++
T Consensus        79 ~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~~  158 (218)
T 1nrj_B           79 RAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQKVIERRKK  158 (218)
T ss_dssp             HGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHHHHhc
Confidence                89999999999 888888888888776543    34689999999999997665433      3445556666666


Q ss_pred             eEEEeccCCCCC
Q 028884          172 FFIETSAKTADN  183 (202)
Q Consensus       172 ~~~~~s~~~~~~  183 (202)
                      .++++|++++.+
T Consensus       159 ~~~~~Sa~~~~~  170 (218)
T 1nrj_B          159 SLNEVERKINEE  170 (218)
T ss_dssp             HHHC--------
T ss_pred             cccccccccccc
Confidence            788888887764

>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=99.91  E-value=7.6e-24  Score=162.34  Aligned_cols=156  Identities=18%  Similarity=0.177  Sum_probs=109.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCcc-ccceeEEEEEEEecCCcEEEEEEEeCCChhh--------hhhcccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV-TVGASFLSQTIALQDSTTVKFEIWDTAGQER--------YAALAPL  102 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~  102 (202)
                      +..+|+++|.+|+|||||+|+|++..+...... ..+..........  .. ..+.+|||||...        +......
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~--~~-~~l~l~DTpG~~~~~~~l~~~~~~~~~~   82 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTE--GR-RQIVFVDTPGLHKPMDALGEFMDQEVYE   82 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEE--TT-EEEEEEECCCCCCCCSHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEe--CC-cEEEEecCccccchhhHHHHHHHHHHHH
Confidence            467899999999999999999999877543322 2222221111221  22 6899999999654        4556667


Q ss_pred             cccCccEEEEEEeCCChhHHHHHHHHH-HHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH--cCCeEEEeccC
Q 028884          103 YYRGAAVAVVVYDITSPDSFNKAQYWV-KELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK--NGMFFIETSAK  179 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~s~~~~~~~~-~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~--~~~~~~~~s~~  179 (202)
                      +++.+|++++|+|++++.+..  ..|+ +.+... ..+.|+++|+||+|+......    .......  ...+++++||+
T Consensus        83 ~l~~ad~il~VvD~~~~~~~~--~~~i~~~l~~~-~~~~p~ilV~NK~Dl~~~~~~----~~~~~~~~~~~~~~~~iSA~  155 (301)
T 1wf3_A           83 ALADVNAVVWVVDLRHPPTPE--DELVARALKPL-VGKVPILLVGNKLDAAKYPEE----AMKAYHELLPEAEPRMLSAL  155 (301)
T ss_dssp             HTSSCSEEEEEEETTSCCCHH--HHHHHHHHGGG-TTTSCEEEEEECGGGCSSHHH----HHHHHHHTSTTSEEEECCTT
T ss_pred             HHhcCCEEEEEEECCCCCChH--HHHHHHHHHhh-cCCCCEEEEEECcccCCchHH----HHHHHHHhcCcCcEEEEeCC
Confidence            889999999999999874433  3343 445443 247899999999998653220    1222222  23568999999


Q ss_pred             CCCCHHHHHHHHHHHcCC
Q 028884          180 TADNINQLFEEIAKRLPR  197 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i~~  197 (202)
                      +|.|++++++.|.+.+.+
T Consensus       156 ~g~gv~~l~~~l~~~l~~  173 (301)
T 1wf3_A          156 DERQVAELKADLLALMPE  173 (301)
T ss_dssp             CHHHHHHHHHHHHTTCCB
T ss_pred             CCCCHHHHHHHHHHhccc
Confidence            999999999999988754

>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=99.91  E-value=7e-24  Score=171.35  Aligned_cols=157  Identities=17%  Similarity=0.152  Sum_probs=99.1

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcc--------cc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALA--------PL  102 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------~~  102 (202)
                      ..++|+|+|.+|+|||||+|+|.+..... ...+..+.+.....+.+.+   +.+.+|||||...+...+        ..
T Consensus       232 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g---~~l~liDT~G~~~~~~~ve~~gi~~~~~  308 (476)
T 3gee_A          232 EGVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK---TMFRLTDTAGLREAGEEIEHEGIRRSRM  308 (476)
T ss_dssp             HCEEEEEECCTTSSHHHHHHHCC------------------CEEEEETT---EEEEEEC--------------------C
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC---eEEEEEECCCCCcchhHHHHHHHHHHHh
Confidence            46899999999999999999999875322 2233334444344444433   689999999987655333        44


Q ss_pred             cccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCC
Q 028884          103 YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD  182 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  182 (202)
                      +++.+|++|+|+|++++.++..+..+...+....  ++|+++|+||+|+......   ....+......+++++||++|.
T Consensus       309 ~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~--~~piIvV~NK~Dl~~~~~~---~~~~l~~~~~~~~i~vSAktg~  383 (476)
T 3gee_A          309 KMAEADLILYLLDLGTERLDDELTEIRELKAAHP--AAKFLTVANKLDRAANADA---LIRAIADGTGTEVIGISALNGD  383 (476)
T ss_dssp             CCSSCSEEEEEEETTTCSSGGGHHHHHHHHHHCT--TSEEEEEEECTTSCTTTHH---HHHHHHHHHTSCEEECBTTTTB
T ss_pred             hcccCCEEEEEEECCCCcchhhhHHHHHHHHhcC--CCCEEEEEECcCCCCccch---hHHHHHhcCCCceEEEEECCCC
Confidence            6889999999999999877654444444344332  7999999999998765433   2233333324679999999999


Q ss_pred             CHHHHHHHHHHHcC
Q 028884          183 NINQLFEEIAKRLP  196 (202)
Q Consensus       183 ~i~~~~~~l~~~i~  196 (202)
                      |+++++++|.+.+.
T Consensus       384 GI~eL~~~i~~~~~  397 (476)
T 3gee_A          384 GIDTLKQHMGDLVK  397 (476)
T ss_dssp             SHHHHHHHHTHHHH
T ss_pred             CHHHHHHHHHHHHh
Confidence            99999999999886

>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=99.91  E-value=3.2e-24  Score=167.29  Aligned_cols=117  Identities=15%  Similarity=0.276  Sum_probs=97.4

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCC----------hhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCC
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITS----------PDSFNKAQYWVKELQKH-GSPDIVMALVGNKADL  151 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~  151 (202)
                      +.+++||++|++.++..|..++++++++|+|||+++          ..++.+...|+..+... ...++|++||+||+|+
T Consensus       193 ~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~piiLv~NK~DL  272 (353)
T 1cip_A          193 LHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDL  272 (353)
T ss_dssp             EEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHH
T ss_pred             eeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcEEEEEECcCc
Confidence            789999999999999999999999999999999999          45688888888877654 2357999999999998


Q ss_pred             CCCC---------------CCChHHHHHHHH-----------HcCCeEEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          152 HEKR---------------EVPAQDGIEYAE-----------KNGMFFIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       152 ~~~~---------------~~~~~~~~~~~~-----------~~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      .++.               .+..+++..++.           ..++.++++||+++.|+.++|+++.+.+.+..
T Consensus       273 ~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~~i~~~~  346 (353)
T 1cip_A          273 FEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKNN  346 (353)
T ss_dssp             HHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             hhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHHHHHHHH
Confidence            4321               255677777776           35677999999999999999999998876543

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.91  E-value=5.9e-25  Score=174.99  Aligned_cols=164  Identities=18%  Similarity=0.181  Sum_probs=116.5

Q ss_pred             CCCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhc----
Q 028884           25 GSSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAAL----   99 (202)
Q Consensus        25 ~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~----   99 (202)
                      ++..+....++|+|+|..++|||||+++|++..+.. ...+..+.+.....+.+.+.  ..+.+|||||+..+..+    
T Consensus        26 m~~~~~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~--~~l~liDTpG~~d~~~l~~~~  103 (423)
T 3qq5_A           26 MRLPDAGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPI--GPVTLVDTPGLDDVGELGRLR  103 (423)
T ss_dssp             CCC---CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTT--EEEEEEECSSTTCCCTTCCCC
T ss_pred             cccCCCCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCC--CeEEEEECcCCCcccchhHHH
Confidence            344455678999999999999999999999877532 22333444444455555443  37999999999876544    


Q ss_pred             ---ccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEe
Q 028884          100 ---APLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIET  176 (202)
Q Consensus       100 ---~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  176 (202)
                         +..+++.+|++|+|+|++..   .....|+..+...   ++|+++|+||+|+......  +....++..++++++++
T Consensus       104 ~~~~~~~l~~aD~vllVvD~~~~---~~~~~~l~~l~~~---~~piIvV~NK~Dl~~~~~~--~~~~~l~~~~g~~v~~v  175 (423)
T 3qq5_A          104 VEKARRVFYRADCGILVTDSAPT---PYEDDVVNLFKEM---EIPFVVVVNKIDVLGEKAE--ELKGLYESRYEAKVLLV  175 (423)
T ss_dssp             HHHHHHHHTSCSEEEEECSSSCC---HHHHHHHHHHHHT---TCCEEEECCCCTTTTCCCT--HHHHHSSCCTTCCCCCC
T ss_pred             HHHHHHHHhcCCEEEEEEeCCCh---HHHHHHHHHHHhc---CCCEEEEEeCcCCCCccHH--HHHHHHHHHcCCCEEEE
Confidence               33478889999999999332   3446677766655   7899999999998765543  45556666678899999


Q ss_pred             ccCCCCCHHHHHHHHHHHcCCC
Q 028884          177 SAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       177 s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      ||++|.|++++|++|.+.+.+.
T Consensus       176 SAktg~gI~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          176 SALQKKGFDDIGKTISEILPGD  197 (423)
T ss_dssp             SSCCTTSTTTHHHHHHHHSCCC
T ss_pred             ECCCCCCHHHHHHHHHHhhhhh
Confidence            9999999999999999999553

>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=99.90  E-value=9.2e-24  Score=165.18  Aligned_cols=115  Identities=15%  Similarity=0.218  Sum_probs=87.9

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCC----------hhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCC
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITS----------PDSFNKAQYWVKELQKH-GSPDIVMALVGNKADL  151 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~  151 (202)
                      +.+++||++|++.++..|..++++++++|+|+|+++          ..++.....|+..+... ...++|++|++||+|+
T Consensus       201 ~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~DL  280 (362)
T 1zcb_A          201 VPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDL  280 (362)
T ss_dssp             EEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHH
T ss_pred             eEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChhh
Confidence            789999999999999999999999999999999999          67898888888887654 2357999999999998


Q ss_pred             CCCC----------------CCChHHHHHHHH-----------HcCCeEEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          152 HEKR----------------EVPAQDGIEYAE-----------KNGMFFIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       152 ~~~~----------------~~~~~~~~~~~~-----------~~~~~~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      .++.                .+..+++..++.           ...+.++++||+++.|++++|+++.+.+.+
T Consensus       281 ~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~~i~~  353 (362)
T 1zcb_A          281 LEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILH  353 (362)
T ss_dssp             HHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             hhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHHHHHH
Confidence            5321                255666666652           345678999999999999999999987754

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.90  E-value=7.6e-24  Score=170.27  Aligned_cols=159  Identities=21%  Similarity=0.187  Sum_probs=111.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCC-CCCccccceeEEEEEEEecCCcEEEEEEEeCCCh----------hhhhhc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFD-PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ----------ERYAAL   99 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~   99 (202)
                      +..++|+++|.+|+|||||+|+|++.... ....++.+.+.....+.+.+   ..+.+|||||+          +.|..+
T Consensus       173 ~~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~---~~~~l~DT~G~~~~~~~~~~~e~~~~~  249 (436)
T 2hjg_A          173 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQ---QEFVIVDTAGMRKKGKVYETTEKYSVL  249 (436)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETT---EEEEETTHHHHTCBTTBCCCCSHHHHH
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECC---eEEEEEECCCcCcCccccchHHHHHHH
Confidence            45799999999999999999999987653 22223333333333344433   46999999997          445444


Q ss_pred             cc-ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHH-H----HcCCeE
Q 028884          100 AP-LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYA-E----KNGMFF  173 (202)
Q Consensus       100 ~~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-~----~~~~~~  173 (202)
                      .. .+++.+|++++|+|++++.+++.. .|+..+..   .+.|+++|+||+|+.+......++..... .    ..++++
T Consensus       250 ~~~~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~  325 (436)
T 2hjg_A          250 RALKAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPI  325 (436)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCE
T ss_pred             HHHHHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHHH---cCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCE
Confidence            33 467889999999999998777664 46666654   47899999999998765544333332222 2    236789


Q ss_pred             EEeccCCCCCHHHHHHHHHHHcC
Q 028884          174 IETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       174 ~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      +++||++|.|++++|+.+.+.+.
T Consensus       326 ~~~SA~tg~~v~~l~~~i~~~~~  348 (436)
T 2hjg_A          326 LFMSALTKKRIHTLMPAIIKASE  348 (436)
T ss_dssp             EECCTTTCTTGGGHHHHHHHHHH
T ss_pred             EEEecccCCCHHHHHHHHHHHHH
Confidence            99999999999999999887664

>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=99.90  E-value=1.5e-22  Score=161.21  Aligned_cols=169  Identities=17%  Similarity=0.103  Sum_probs=118.2

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEE-----------------EEEecCCcEEEEEEEeCC
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQ-----------------TIALQDSTTVKFEIWDTA   91 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~~~~~~i~D~~   91 (202)
                      ..++.++|+++|++++|||||+++|++..................                 ...........+.+||||
T Consensus         4 ~~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtP   83 (403)
T 3sjy_A            4 KVQPEVNIGVVGHVDHGKTTLVQAITGIWTSKKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDAP   83 (403)
T ss_dssp             CCCCCCEEEEECSTTSSHHHHHHHHHSCCCCSSSEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEEECC
T ss_pred             ccCCCcEEEEECCCCCCHHHHHHHHhCcccccccCccccceeeccccccccceecccccccccccccccccceEEEEECC
Confidence            345689999999999999999999998543221111000000000                 000001122689999999


Q ss_pred             ChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC--hHHHHHHHHH-
Q 028884           92 GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP--AQDGIEYAEK-  168 (202)
Q Consensus        92 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~-  168 (202)
                      |++.|...+...+..+|++|+|+|++++.++.+..+|+..+....  ..|+++|+||+|+.+.....  .++...+... 
T Consensus        84 Gh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~--~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~  161 (403)
T 3sjy_A           84 GHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVVSKEEALSQYRQIKQFTKGT  161 (403)
T ss_dssp             CCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTS
T ss_pred             CcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcC--CCCEEEEEECccccchHHHHHHHHHHHHHHHhh
Confidence            999999988889999999999999999876777777877776653  25799999999986532211  1112222221 


Q ss_pred             --cCCeEEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          169 --NGMFFIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       169 --~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                        ..++++++||++|.|+++++++|.+.+..+.
T Consensus       162 ~~~~~~ii~vSA~~g~gi~~L~~~l~~~l~~~~  194 (403)
T 3sjy_A          162 WAENVPIIPVSALHKINIDSLIEGIEEYIKTPY  194 (403)
T ss_dssp             TTTTCCEEECBTTTTBSHHHHHHHHHHHSCCCC
T ss_pred             CCCCCEEEEEECCCCcChHHHHHHHHHhCCCCC
Confidence              1568999999999999999999999887654

>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=99.90  E-value=1.2e-23  Score=163.40  Aligned_cols=161  Identities=20%  Similarity=0.193  Sum_probs=116.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh----hhhcccccc---cC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER----YAALAPLYY---RG  106 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~~~---~~  106 (202)
                      .+|+|+|.+++|||||+++|++........+..+.......+.+.+.  ..+.+||+||..+    +..+...++   ..
T Consensus       159 a~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~~~--~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~  236 (342)
T 1lnz_A          159 ADVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDG--RSFVMADLPGLIEGAHQGVGLGHQFLRHIER  236 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSS--CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHH
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCceEEEEEeCCC--ceEEEecCCCCcccccccchhHHHHHHHHHh
Confidence            36889999999999999999986532222222222222333444332  4799999999654    222333343   45


Q ss_pred             ccEEEEEEeCCC---hhHHHHHHHHHHHHHHcC--CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcC--CeEEEeccC
Q 028884          107 AAVAVVVYDITS---PDSFNKAQYWVKELQKHG--SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNG--MFFIETSAK  179 (202)
Q Consensus       107 ~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~s~~  179 (202)
                      +|++|+|+|+++   ..+++.+..|+..+....  ..++|+++|+||+|+....    +....+...+.  .+++++||+
T Consensus       237 ~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~----e~~~~l~~~l~~~~~v~~iSA~  312 (342)
T 1lnz_A          237 TRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAV  312 (342)
T ss_dssp             CCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSC
T ss_pred             ccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCH----HHHHHHHHHhhcCCCEEEEECC
Confidence            999999999998   677888888988888763  2579999999999986432    34455666665  679999999


Q ss_pred             CCCCHHHHHHHHHHHcCCCCC
Q 028884          180 TADNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i~~~~~  200 (202)
                      ++.|+++++++|.+.+.+.+.
T Consensus       313 tg~gi~eL~~~l~~~l~~~~~  333 (342)
T 1lnz_A          313 TREGLRELLFEVANQLENTPE  333 (342)
T ss_dssp             CSSTTHHHHHHHHHHHTSCCC
T ss_pred             CCcCHHHHHHHHHHHHhhCcc
Confidence            999999999999999987654

>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=99.90  E-value=3e-22  Score=159.75  Aligned_cols=168  Identities=17%  Similarity=0.191  Sum_probs=107.7

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCC---CCCCcc--ccceeEEEEEEEe-------------cC-C----cEEEEE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQF---DPTSKV--TVGASFLSQTIAL-------------QD-S----TTVKFE   86 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~---~~~~~~--~~~~~~~~~~~~~-------------~~-~----~~~~~~   86 (202)
                      +++.++|+++|+.++|||||+++|.+...   ......  +....+....+..             .+ +    ....+.
T Consensus         5 r~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~   84 (408)
T 1s0u_A            5 SQAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVS   84 (408)
T ss_dssp             CCCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEE
T ss_pred             cCCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEE
Confidence            45679999999999999999999996432   222223  2222222222211             10 1    126899


Q ss_pred             EEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC--ChHHHHH
Q 028884           87 IWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV--PAQDGIE  164 (202)
Q Consensus        87 i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~  164 (202)
                      +||+||++.|.......+..+|++|+|+|++++....+..+.+..+....  ..|+++++||+|+......  ..++...
T Consensus        85 iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~l~--~~~iivv~NK~Dl~~~~~~~~~~~~i~~  162 (408)
T 1s0u_A           85 FVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEILG--IDKIIIVQNKIDLVDEKQAEENYEQIKE  162 (408)
T ss_dssp             EEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTT--CCCEEEEEECTTSSCTTTTTTHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHHcC--CCeEEEEEEccCCCCHHHHHHHHHHHHH
Confidence            99999999998888788888999999999996531222233333333332  2479999999998765432  2344455


Q ss_pred             HHHH---cCCeEEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          165 YAEK---NGMFFIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       165 ~~~~---~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      +...   .+++++++||++|.|+++++++|.+.+..+.
T Consensus       163 ~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~~~~  200 (408)
T 1s0u_A          163 FVKGTIAENAPIIPISAHHEANIDVLLKAIQDFIPTPK  200 (408)
T ss_dssp             HHTTSTTTTCCEEEC------CHHHHHHHHHHHSCCCC
T ss_pred             HHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhCCCCc
Confidence            5543   3678999999999999999999999887653

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.90  E-value=7.9e-23  Score=160.46  Aligned_cols=160  Identities=18%  Similarity=0.174  Sum_probs=116.2

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh---------hccc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA---------ALAP  101 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~  101 (202)
                      ...++|+++|.+|+|||||+++|.+........+..+.......+...  . ..+.+|||||.....         ....
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~--~-~~~~l~Dt~G~~~~~~~~~~~~~~~~~~  241 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDG--Y-FRYQIIDTPGLLDRPISERNEIEKQAIL  241 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEET--T-EEEEEEECTTTSSSCSTTSCHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEec--C-ceEEEEeCCCccccchhhhhHHHHHHHH
Confidence            356899999999999999999999876322222222223323333222  2 679999999974321         1112


Q ss_pred             ccccCccEEEEEEeCCChh--HHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccC
Q 028884          102 LYYRGAAVAVVVYDITSPD--SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAK  179 (202)
Q Consensus       102 ~~~~~~d~~i~v~d~~~~~--s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~  179 (202)
                      .+...+|++++|+|++++.  ++.....|+..+..... +.|+++|+||+|+.....  .++...++...+++++++||+
T Consensus       242 ~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~-~~piilV~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~iSA~  318 (357)
T 2e87_A          242 ALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFK-DLPFLVVINKIDVADEEN--IKRLEKFVKEKGLNPIKISAL  318 (357)
T ss_dssp             GGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTT-TSCEEEEECCTTTCCHHH--HHHHHHHHHHTTCCCEECBTT
T ss_pred             HHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcC-CCCEEEEEECcccCChHH--HHHHHHHHHhcCCCeEEEeCC
Confidence            3445689999999998876  67777888888876533 799999999999865432  244556666788899999999


Q ss_pred             CCCCHHHHHHHHHHHcC
Q 028884          180 TADNINQLFEEIAKRLP  196 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i~  196 (202)
                      +|.|+++++++|.+.+.
T Consensus       319 ~g~gi~~l~~~i~~~l~  335 (357)
T 2e87_A          319 KGTGIDLVKEEIIKTLR  335 (357)
T ss_dssp             TTBTHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHHH
Confidence            99999999999998764

>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=99.90  E-value=2.1e-23  Score=168.58  Aligned_cols=160  Identities=21%  Similarity=0.202  Sum_probs=115.4

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCC-CCCccccceeEEEEEEEecCCcEEEEEEEeCCC----------hhhhhh
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFD-PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG----------QERYAA   98 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~   98 (202)
                      ....++|+++|.+++|||||+++|.+.... ....++.+.+.....+...+   ..+.+|||||          .+.|..
T Consensus       192 ~~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~---~~~~l~DT~G~~~~~~~~~~~e~~~~  268 (456)
T 4dcu_A          192 NEEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQ---QEFVIVDTAGMRKKGKVYETTEKYSV  268 (456)
T ss_dssp             CTTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETT---EEEEETTGGGTTTBTTBCCCCSHHHH
T ss_pred             ccccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECC---ceEEEEECCCCCcCcccchHHHHHHH
Confidence            456799999999999999999999976421 12222233332223333333   4799999999          566665


Q ss_pred             ccc-ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc-----CCe
Q 028884           99 LAP-LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN-----GMF  172 (202)
Q Consensus        99 ~~~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~  172 (202)
                      ... .+++.+|++|+|+|++++.+ .....|+..+..   .++|+++|+||+|+.+......++..+.+...     .++
T Consensus       269 ~~~~~~~~~ad~~llviD~~~~~~-~~~~~~~~~~~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  344 (456)
T 4dcu_A          269 LRALKAIDRSEVVAVVLDGEEGII-EQDKRIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAP  344 (456)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTCCC-HHHHHHHHHHHH---TTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSC
T ss_pred             HHHHHHHhhCCEEEEEEeCCCCcC-HHHHHHHHHHHH---cCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCC
Confidence            544 47788999999999998643 233445555554   36899999999999876666666666666654     578


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHcC
Q 028884          173 FIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       173 ~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      ++++||++|.|++++|++|.+.+.
T Consensus       345 ~~~~SA~~g~gv~~l~~~i~~~~~  368 (456)
T 4dcu_A          345 ILFMSALTKKRIHTLMPAIIKASE  368 (456)
T ss_dssp             EEECCTTTCTTGGGHHHHHHHHHH
T ss_pred             EEEEcCCCCcCHHHHHHHHHHHHH
Confidence            999999999999999999988763

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.89  E-value=2.4e-22  Score=166.05  Aligned_cols=162  Identities=19%  Similarity=0.218  Sum_probs=114.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCC--CCC-----CC--------ccccceeEEEEEEEec--CCcEEEEEEEeCCChh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQ--FDP-----TS--------KVTVGASFLSQTIALQ--DSTTVKFEIWDTAGQE   94 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~--~~~-----~~--------~~~~~~~~~~~~~~~~--~~~~~~~~i~D~~G~~   94 (202)
                      +..+|+|+|+.++|||||+++|+...  ...     ..        ....+.......+.+.  ++..+.+.+|||||+.
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~   82 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHV   82 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCch
Confidence            46899999999999999999998621  110     00        0111221112223232  4555899999999999


Q ss_pred             hhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCe--
Q 028884           95 RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMF--  172 (202)
Q Consensus        95 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~--  172 (202)
                      .|...+..+++.+|++|+|+|++++.+++....|+....    .++|+++|+||+|+....  ......++....+..  
T Consensus        83 dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~----~~ipiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~  156 (599)
T 3cb4_D           83 DFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAME----MDLEVVPVLNKIDLPAAD--PERVAEEIEDIVGIDAT  156 (599)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--HHHHHHHHHHHTCCCCT
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEeeeccCccccc--HHHHHHHHHHHhCCCcc
Confidence            999889999999999999999999877777777765543    368999999999987543  223344555555654  


Q ss_pred             -EEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          173 -FIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       173 -~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                       ++++||++|.|+++++++|.+.+..+.
T Consensus       157 ~vi~vSAktg~GI~~Ll~~I~~~lp~p~  184 (599)
T 3cb4_D          157 DAVRCSAKTGVGVQDVLERLVRDIPPPE  184 (599)
T ss_dssp             TCEEECTTTCTTHHHHHHHHHHHSCCCC
T ss_pred             eEEEeecccCCCchhHHHHHhhcCCCcc
Confidence             899999999999999999999998764

>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=99.89  E-value=3.8e-22  Score=159.29  Aligned_cols=169  Identities=18%  Similarity=0.197  Sum_probs=113.7

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCC---CCCccccce--eEEEEEEEe-------------cC-Cc----EEEE
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFD---PTSKVTVGA--SFLSQTIAL-------------QD-ST----TVKF   85 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~--~~~~~~~~~-------------~~-~~----~~~~   85 (202)
                      .+++.++|+++|+.++|||||+++|.+....   .......+.  .+....+..             .+ +.    ...+
T Consensus         6 ~~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i   85 (410)
T 1kk1_A            6 SRQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRV   85 (410)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEE
T ss_pred             cCCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEE
Confidence            4567899999999999999999999964322   222232233  222222211             00 11    2689


Q ss_pred             EEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC--CChHHHH
Q 028884           86 EIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE--VPAQDGI  163 (202)
Q Consensus        86 ~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~  163 (202)
                      .+||+||++.|.......+..+|++|+|+|++++....+..+.+..+....  ..|+++|+||+|+.....  ...++..
T Consensus        86 ~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~~--~~~iivviNK~Dl~~~~~~~~~~~~i~  163 (410)
T 1kk1_A           86 SFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIG--QKNIIIAQNKIELVDKEKALENYRQIK  163 (410)
T ss_dssp             EEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHH
T ss_pred             EEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHHcC--CCcEEEEEECccCCCHHHHHHHHHHHH
Confidence            999999999998877777888999999999996531222233333333332  247999999999865321  1122333


Q ss_pred             HHHHH---cCCeEEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          164 EYAEK---NGMFFIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       164 ~~~~~---~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      .+...   ...+++++||++|.|+++++++|.+.+..+.
T Consensus       164 ~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~~p~  202 (410)
T 1kk1_A          164 EFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIPTPK  202 (410)
T ss_dssp             HHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCCCC
T ss_pred             HHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhCCCCc
Confidence            44333   3578999999999999999999999887653

>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=99.89  E-value=4.1e-22  Score=164.40  Aligned_cols=163  Identities=20%  Similarity=0.239  Sum_probs=116.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCC--CCCC-----C--------ccccceeEEEEEEEe--cCCcEEEEEEEeCCCh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQ--FDPT-----S--------KVTVGASFLSQTIAL--QDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~--~~~~-----~--------~~~~~~~~~~~~~~~--~~~~~~~~~i~D~~G~   93 (202)
                      ++..+|+++|+.++|||||+++|+...  ....     .        ...++.......+.+  .++..+.+.+|||||+
T Consensus         4 ~~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh   83 (600)
T 2ywe_A            4 KNVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGH   83 (600)
T ss_dssp             GGEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCS
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCc
Confidence            457899999999999999999998621  1100     0        011111111112222  2455589999999999


Q ss_pred             hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC--
Q 028884           94 ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM--  171 (202)
Q Consensus        94 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~--  171 (202)
                      ..|...+..+++.+|++|+|+|++++.+.+....|+....    .++|+++|+||+|+....  ......++....+.  
T Consensus        84 ~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~----~~ipiIvviNKiDl~~a~--~~~v~~el~~~lg~~~  157 (600)
T 2ywe_A           84 VDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVE----QDLVIIPVINKIDLPSAD--VDRVKKQIEEVLGLDP  157 (600)
T ss_dssp             GGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--HHHHHHHHHHTSCCCG
T ss_pred             HhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH----CCCCEEEEEeccCccccC--HHHHHHHHHHhhCCCc
Confidence            9999888888999999999999999877777777765543    378999999999986543  22333445555565  


Q ss_pred             -eEEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          172 -FFIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       172 -~~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                       .++++||++|.|++++|++|++.+..+.
T Consensus       158 ~~vi~vSAktg~GI~~Lle~I~~~lp~p~  186 (600)
T 2ywe_A          158 EEAILASAKEGIGIEEILEAIVNRIPPPK  186 (600)
T ss_dssp             GGCEECBTTTTBSHHHHHHHHHHHSCCCC
T ss_pred             ccEEEEEeecCCCchHHHHHHHHhccccc
Confidence             3899999999999999999999998764

>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=99.88  E-value=2.5e-22  Score=149.37  Aligned_cols=164  Identities=15%  Similarity=0.194  Sum_probs=106.3

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCcc--ccceeEEEEEEEecCCcEEEEEEEeCCC-----------hhh
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV--TVGASFLSQTIALQDSTTVKFEIWDTAG-----------QER   95 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~i~D~~G-----------~~~   95 (202)
                      +....++|+|+|.+|+|||||+|+|++........+  +.+.........+.+   ..+.+|||||           ...
T Consensus        25 ~~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~---~~i~liDTpG~~~~~~~~~~~~~~  101 (239)
T 3lxx_A           25 PRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKE---TELVVVDTPGIFDTEVPNAETSKE  101 (239)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETT---EEEEEEECCSCC-----CHHHHHH
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCC---ceEEEEECCCccCCCCCHHHHHHH
Confidence            345689999999999999999999999876544443  233333333333333   5799999999           334


Q ss_pred             hhhcccccccCccEEEEEEeCCChhH--HHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC------hHHHHHHHH
Q 028884           96 YAALAPLYYRGAAVAVVVYDITSPDS--FNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP------AQDGIEYAE  167 (202)
Q Consensus        96 ~~~~~~~~~~~~d~~i~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~------~~~~~~~~~  167 (202)
                      +...+..+.+.+|++|+|+|+++...  ...+..+...+...  ...|+++|+||+|+.....+.      .+....+..
T Consensus       102 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~~~--~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~  179 (239)
T 3lxx_A          102 IIRCILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFGER--ARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMD  179 (239)
T ss_dssp             HHHHHHHTTTCCSEEEEEEETTCCSSHHHHHHHHHHHHHHHH--HGGGEEEEEECGGGC------------CHHHHHHHH
T ss_pred             HHHHHHhcCCCCcEEEEEeeCCCCCHHHHHHHHHHHHHhhhh--ccceEEEEEeCCccCCcccHHHHHHhchHHHHHHHH
Confidence            55555666778999999999875432  22222222222211  245899999999986654332      245677788


Q ss_pred             HcCCeEEEeccCCC-----CCHHHHHHHHHHHcCC
Q 028884          168 KNGMFFIETSAKTA-----DNINQLFEEIAKRLPR  197 (202)
Q Consensus       168 ~~~~~~~~~s~~~~-----~~i~~~~~~l~~~i~~  197 (202)
                      .++..++.++...+     .++.++|+.+...+.+
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~  214 (239)
T 3lxx_A          180 IFGDRYCALNNKATGAEQEAQRAQLLGLIQRVVRE  214 (239)
T ss_dssp             HHSSSEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCEEEEEECCCCccccHHHHHHHHHHHHHHHHH
Confidence            88888888877644     6899999988877754

>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=99.88  E-value=2.5e-22  Score=162.96  Aligned_cols=159  Identities=16%  Similarity=0.122  Sum_probs=109.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCC-------CCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhccccc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQ-------FDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLY  103 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~  103 (202)
                      .+.++|+++|++++|||||+++|.+..       .........+.+.....+.+.+   ..+.+||+||++.|...+...
T Consensus        17 m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~---~~i~iiDtPGh~~~~~~~~~~   93 (482)
T 1wb1_A           17 FKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN---YRITLVDAPGHADLIRAVVSA   93 (482)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT---EEEEECCCSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC---EEEEEEECCChHHHHHHHHHH
Confidence            357999999999999999999999866       1222222333333333344432   689999999999998888888


Q ss_pred             ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC--CChHHHHHHHHHc----CCeEEEec
Q 028884          104 YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE--VPAQDGIEYAEKN----GMFFIETS  177 (202)
Q Consensus       104 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~~----~~~~~~~s  177 (202)
                      +..+|++|+|+|++++.. .+..+++..+...   ++|+++|+||+|+.....  ...++...+....    ..+++++|
T Consensus        94 ~~~aD~~ilVvda~~g~~-~qt~e~l~~~~~~---~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~vS  169 (482)
T 1wb1_A           94 ADIIDLALIVVDAKEGPK-TQTGEHMLILDHF---NIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPIS  169 (482)
T ss_dssp             TTSCCEEEEEEETTTCSC-HHHHHHHHHHHHT---TCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECC
T ss_pred             HhhCCEEEEEEecCCCcc-HHHHHHHHHHHHc---CCCEEEEEECCCcccchhHHHHHHHHHHHHhhhcccccceEEEEE
Confidence            999999999999998421 1222333334333   678899999999875321  1123344444444    57899999


Q ss_pred             cCCCCCHHHHHHHHHHHcC
Q 028884          178 AKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       178 ~~~~~~i~~~~~~l~~~i~  196 (202)
                      |++|.|+++++++|.+.+.
T Consensus       170 A~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          170 AKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             TTTCTTHHHHHHHHHHHHH
T ss_pred             CcCCCCHHHHHHHHHHhhc
Confidence            9999999999999998764

>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=99.88  E-value=6.1e-22  Score=151.88  Aligned_cols=160  Identities=16%  Similarity=0.142  Sum_probs=108.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc-cccceeEEEEEEEecCCcEEEEEEEeCCChh---------hhhhcc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK-VTVGASFLSQTIALQDSTTVKFEIWDTAGQE---------RYAALA  100 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~  100 (202)
                      .+..+|+++|++|+|||||+|+|++..+..... +..+.......+.  .+. ..+.+|||||..         .+....
T Consensus         6 ~r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~--~~~-~~i~~iDTpG~~~~~~~~l~~~~~~~~   82 (301)
T 1ega_A            6 SYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHT--EGA-YQAIYVDTPGLHMEEKRAINRLMNKAA   82 (301)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEE--ETT-EEEEEESSSSCCHHHHHHHHHHHTCCT
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcceeeEEEEEE--ECC-eeEEEEECcCCCccchhhHHHHHHHHH
Confidence            345689999999999999999999976532221 1111111111122  122 689999999986         234455


Q ss_pred             cccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC-eEEEeccC
Q 028884          101 PLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM-FFIETSAK  179 (202)
Q Consensus       101 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~s~~  179 (202)
                      ..+++.+|++++|+|+++   +.....|+.....  ..+.|+++|+||+|+.............+....+. .++++|++
T Consensus        83 ~~~l~~~D~vl~Vvd~~~---~~~~~~~i~~~l~--~~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~~~~~~i~iSA~  157 (301)
T 1ega_A           83 SSSIGDVELVIFVVEGTR---WTPDDEMVLNKLR--EGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAE  157 (301)
T ss_dssp             TSCCCCEEEEEEEEETTC---CCHHHHHHHHHHH--SSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTT
T ss_pred             HHHHhcCCEEEEEEeCCC---CCHHHHHHHHHHH--hcCCCEEEEEECcccCccHHHHHHHHHHHHHhcCcCceEEEECC
Confidence            677889999999999977   2222233332222  34789999999999865222222334445444565 69999999


Q ss_pred             CCCCHHHHHHHHHHHcCCC
Q 028884          180 TADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i~~~  198 (202)
                      ++.|+.++++.|.+.+.+.
T Consensus       158 ~g~~v~~l~~~i~~~l~~~  176 (301)
T 1ega_A          158 TGLNVDTIAAIVRKHLPEA  176 (301)
T ss_dssp             TTTTHHHHHHHHHTTCCBC
T ss_pred             CCCCHHHHHHHHHHhCCcC
Confidence            9999999999999887643

>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=99.88  E-value=1.5e-22  Score=163.68  Aligned_cols=152  Identities=21%  Similarity=0.280  Sum_probs=109.7

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCC-CCCccccceeEEEEEEEecCCcEEEEEEEeCCChh-hhhh--------cccc
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFD-PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE-RYAA--------LAPL  102 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-~~~~--------~~~~  102 (202)
                      .++|+++|.+|+|||||+|+|.+.... ....+..+.+.....+.+.+   ..+.+|||||.. .+..        ....
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g---~~~~l~DTaG~~~~~~~~ve~~gi~~~~~  319 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG---ILFRIVDTAGVRSETNDLVERLGIERTLQ  319 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT---EEEEEEESSCCCSSCCTTCCCCCHHHHHH
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCC---eEEEEEECCCccccchhhHHHHHHHHHHH
Confidence            489999999999999999999987643 22333344444444555533   579999999987 5432        2234


Q ss_pred             cccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCC
Q 028884          103 YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD  182 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  182 (202)
                      +++.+|++|+|+|++++.+++... +++.+     .++|+++|+||+|+.+.  ...++...+. ..+.+++++||++|.
T Consensus       320 ~~~~aD~vl~VvD~s~~~s~~~~~-il~~l-----~~~piivV~NK~DL~~~--~~~~~~~~~~-~~~~~~i~iSAktg~  390 (482)
T 1xzp_A          320 EIEKADIVLFVLDASSPLDEEDRK-ILERI-----KNKRYLVVINKVDVVEK--INEEEIKNKL-GTDRHMVKISALKGE  390 (482)
T ss_dssp             HHHHCSEEEEEEETTSCCCHHHHH-HHHHH-----TTSSEEEEEEECSSCCC--CCHHHHHHHH-TCSTTEEEEEGGGTC
T ss_pred             HhhcccEEEEEecCCCCCCHHHHH-HHHHh-----cCCCEEEEEECcccccc--cCHHHHHHHh-cCCCcEEEEECCCCC
Confidence            678899999999999887665432 33333     36899999999998653  3334443332 234679999999999


Q ss_pred             CHHHHHHHHHHHcC
Q 028884          183 NINQLFEEIAKRLP  196 (202)
Q Consensus       183 ~i~~~~~~l~~~i~  196 (202)
                      |+++++++|.+.+.
T Consensus       391 Gi~eL~~~l~~~~~  404 (482)
T 1xzp_A          391 GLEKLEESIYRETQ  404 (482)
T ss_dssp             CHHHHHHHHHHHTH
T ss_pred             CHHHHHHHHHHHHh
Confidence            99999999998754

>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=99.88  E-value=2.9e-22  Score=161.18  Aligned_cols=150  Identities=21%  Similarity=0.245  Sum_probs=101.6

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccccceeEEEEEEEecCCcEEEEEEEeCCChhh---------hhhccccc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER---------YAALAPLY  103 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~  103 (202)
                      .+|+++|.+|+|||||+|+|.+..... ...+..+.+.....+.+.+   ..+.+|||||.+.         +...+..+
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~---~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~   78 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYG---KTFKLVDTCGVFDNPQDIISQKMKEVTLNM   78 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETT---EEEEEEECTTTTSSGGGCCCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECC---eEEEEEECCCccccccchHHHHHHHHHHHH
Confidence            479999999999999999999876432 2334444455455555543   4689999999653         34566778


Q ss_pred             ccCccEEEEEEeCCChhHHHH--HHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHH-HHHHHHcCC-eEEEeccC
Q 028884          104 YRGAAVAVVVYDITSPDSFNK--AQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDG-IEYAEKNGM-FFIETSAK  179 (202)
Q Consensus       104 ~~~~d~~i~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~-~~~~~~~~~-~~~~~s~~  179 (202)
                      ++.+|++|+|+|+.++.+...  +..|+   +.   .++|+++|+||+|+.+.  . ..+. ..+. .+++ .++++||+
T Consensus        79 ~~~ad~il~V~D~~~~~~~~d~~i~~~l---~~---~~~p~ilv~NK~D~~~~--~-~~~~~~~~~-~lg~~~~~~iSA~  148 (439)
T 1mky_A           79 IREADLVLFVVDGKRGITKEDESLADFL---RK---STVDTILVANKAENLRE--F-EREVKPELY-SLGFGEPIPVSAE  148 (439)
T ss_dssp             HTTCSEEEEEEETTTCCCHHHHHHHHHH---HH---HTCCEEEEEESCCSHHH--H-HHHTHHHHG-GGSSCSCEECBTT
T ss_pred             HHhCCEEEEEEECCCCCCHHHHHHHHHH---HH---cCCCEEEEEeCCCCccc--c-HHHHHHHHH-hcCCCCEEEEecc
Confidence            999999999999987644332  23332   22   26889999999997432  0 1222 3333 4555 68999999


Q ss_pred             CCCCHHHHHHHHHHHcC
Q 028884          180 TADNINQLFEEIAKRLP  196 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i~  196 (202)
                      +|.|+.+++++|.+.+.
T Consensus       149 ~g~gv~~L~~~i~~~l~  165 (439)
T 1mky_A          149 HNINLDTMLETIIKKLE  165 (439)
T ss_dssp             TTBSHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHhcc
Confidence            99999999999998875

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.88  E-value=1.9e-21  Score=156.27  Aligned_cols=155  Identities=17%  Similarity=0.167  Sum_probs=104.9

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCC-------------------------------CCCccccceeEEEEEEEe
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFD-------------------------------PTSKVTVGASFLSQTIAL   77 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~   77 (202)
                      +....++|+++|++++|||||+++|++....                               .......+.+.....+..
T Consensus        13 ~~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~   92 (439)
T 3j2k_7           13 PKKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFET   92 (439)
T ss_pred             CCCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEec
Confidence            3456899999999999999999999653210                               111123344444444433


Q ss_pred             cCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhH---H---HHHHHHHHHHHHcCCCCCe-EEEEEeCCC
Q 028884           78 QDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDS---F---NKAQYWVKELQKHGSPDIV-MALVGNKAD  150 (202)
Q Consensus        78 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~---~~~~~~~~~i~~~~~~~~p-~ivv~nK~D  150 (202)
                      .+   ..+.+|||||++.|...+...+..+|++|+|+|++++..   +   .+..+.+..+..   .++| +++|+||+|
T Consensus        93 ~~---~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~---~~v~~iIvviNK~D  166 (439)
T 3j2k_7           93 EK---KHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT---AGVKHLIVLINKMD  166 (439)
T ss_pred             CC---eEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHH---cCCCeEEEEeecCC
Confidence            32   589999999999999888888999999999999998642   1   123333333333   3566 899999999


Q ss_pred             CCCCC------CCChHHHHHHHHHcC------CeEEEeccCCCCCHHHHHH
Q 028884          151 LHEKR------EVPAQDGIEYAEKNG------MFFIETSAKTADNINQLFE  189 (202)
Q Consensus       151 ~~~~~------~~~~~~~~~~~~~~~------~~~~~~s~~~~~~i~~~~~  189 (202)
                      +....      .....+...+....+      ++++++||++|.|+.++++
T Consensus       167 l~~~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          167 DPTVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             CcccchHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            85421      111223334444433      5799999999999998544

>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=99.87  E-value=6.4e-22  Score=155.99  Aligned_cols=115  Identities=18%  Similarity=0.211  Sum_probs=93.1

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCC----------hhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCC
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITS----------PDSFNKAQYWVKELQKH-GSPDIVMALVGNKADL  151 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~  151 (202)
                      +.+++||++|++.++..|..++++++++|+|||+++          ..+|.....|+..+... ...++|++||+||+|+
T Consensus       217 v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~piiLvgNK~DL  296 (402)
T 1azs_C          217 VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDL  296 (402)
T ss_dssp             EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCEEEEEECHHH
T ss_pred             ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeEEEEEEChhh
Confidence            689999999999999999999999999999999999          78999999999888765 3468999999999997


Q ss_pred             CCCCC---C---------------------------ChHHHHHHH-----HH--------cCCeEEEeccCCCCCHHHHH
Q 028884          152 HEKRE---V---------------------------PAQDGIEYA-----EK--------NGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       152 ~~~~~---~---------------------------~~~~~~~~~-----~~--------~~~~~~~~s~~~~~~i~~~~  188 (202)
                      .+...   +                           ..+++..++     ..        ..+.++++||+++.||+++|
T Consensus       297 ~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~~TSA~d~~nV~~vF  376 (402)
T 1azs_C          297 LAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVF  376 (402)
T ss_dssp             HHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEEECCTTCHHHHHHHH
T ss_pred             hhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEEEEEEeecCcCHHHHH
Confidence            43211   1                           124444443     22        24567899999999999999


Q ss_pred             HHHHHHcCC
Q 028884          189 EEIAKRLPR  197 (202)
Q Consensus       189 ~~l~~~i~~  197 (202)
                      +++.+.+.+
T Consensus       377 ~~v~~~I~~  385 (402)
T 1azs_C          377 NDCRDIIQR  385 (402)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999887753

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.87  E-value=8.7e-24  Score=172.33  Aligned_cols=160  Identities=15%  Similarity=0.179  Sum_probs=114.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +..+|+++|++++|||||+++|.+..+.....++.+.+.....+.+.++.  .+.||||||++.|..++..+++.+|++|
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~g~--~i~~iDTPGhe~f~~~~~~~~~~aD~vI   80 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPSGE--KITFLDTPGHAAFSAMRARGTQVTDIVI   80 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSCSS--CCBCEECSSSCCTTTSBBSSSBSBSSCE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCCCC--EEEEEECCChHHHHHHHHHHHccCCEEE
Confidence            46789999999999999999999866544444444444433334333333  6899999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC-ChHHHHHH---HHHc--CCeEEEeccCCCCCHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV-PAQDGIEY---AEKN--GMFFIETSAKTADNIN  185 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~-~~~~~~~~---~~~~--~~~~~~~s~~~~~~i~  185 (202)
                      +|+|++++...+... ++..+.   ..++|+++|+||+|+...... ...+...+   +..+  .++++++||++|.|++
T Consensus        81 LVVDa~dg~~~qt~e-~l~~~~---~~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~e~~~~~~~iv~vSAktG~GI~  156 (537)
T 3izy_P           81 LVVAADDGVMKQTVE-SIQHAK---DAHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDYGGDVQAVHVSALTGENMM  156 (537)
T ss_dssp             EECBSSSCCCHHHHH-HHHHHH---TTTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCCCCSSSSEEECCCCSSSSCSSH
T ss_pred             EEEECCCCccHHHHH-HHHHHH---HcCCcEEEEEecccccccchHHHHHHHHhhhhhHHhcCCCceEEEEECCCCCCch
Confidence            999999865443333 223333   347899999999998653221 11222111   1111  3479999999999999


Q ss_pred             HHHHHHHHHcCC
Q 028884          186 QLFEEIAKRLPR  197 (202)
Q Consensus       186 ~~~~~l~~~i~~  197 (202)
                      +++++|...+..
T Consensus       157 eLle~I~~l~~~  168 (537)
T 3izy_P          157 ALAEATIALAEM  168 (537)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             hHHHHHHHhhhc
Confidence            999999987653

>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=99.87  E-value=1.1e-21  Score=153.88  Aligned_cols=163  Identities=16%  Similarity=0.099  Sum_probs=109.9

Q ss_pred             eee-EEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCCh---------hhhhhcccc
Q 028884           33 RVK-LVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ---------ERYAALAPL  102 (202)
Q Consensus        33 ~~~-i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~---------~~~~~~~~~  102 (202)
                      .++ |+++|.+|+|||||+|+|.+........+..+.+.....+.+.+   ..+.+|||+|.         +.+...+. 
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g---~~v~l~DT~G~i~~lp~~lve~f~~tl~-  253 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINN---RKIMLVDTVGFIRGIPPQIVDAFFVTLS-  253 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETT---EEEEEEECCCBCSSCCGGGHHHHHHHHH-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECC---EEEEEEeCCCchhcCCHHHHHHHHHHHH-
Confidence            455 99999999999999999998765333333334344445555544   47899999996         23444433 


Q ss_pred             cccCccEEEEEEeCCChh--HHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC-hHHHHHHHHHc---CCeEEEe
Q 028884          103 YYRGAAVAVVVYDITSPD--SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP-AQDGIEYAEKN---GMFFIET  176 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~--s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~-~~~~~~~~~~~---~~~~~~~  176 (202)
                      .+..+|++++|+|++++.  ....+..|...+......+.|+++|+||+|+....... ...+..++...   ..+++++
T Consensus       254 ~~~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~l~~~l~~~~~~~~~~  333 (364)
T 2qtf_A          254 EAKYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPI  333 (364)
T ss_dssp             GGGGSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCSCHHHHHHHHHHHHHHHCSCEEEEEEC
T ss_pred             HHHhCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCchHHHHHHHHHHHHHHhcCCCCcEEEE
Confidence            467899999999999876  55666667666666555678999999999986532100 11222233444   3368999


Q ss_pred             ccCCCCCHHHHHHHHHHHcCCCC
Q 028884          177 SAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       177 s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      |++++.|+++++++|.+.+..+.
T Consensus       334 SA~~g~gi~~L~~~I~~~l~~~~  356 (364)
T 2qtf_A          334 SALKRTNLELLRDKIYQLATQLS  356 (364)
T ss_dssp             BTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             ECCCCcCHHHHHHHHHHHhcccC
Confidence            99999999999999998776544

>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=99.87  E-value=2e-22  Score=162.30  Aligned_cols=155  Identities=17%  Similarity=0.177  Sum_probs=102.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCC-CccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhc--------ccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPT-SKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAAL--------APL  102 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~  102 (202)
                      ..++|+++|.+|+|||||+|+|.+...... ..++.+.+.....+.+.+   ..+.+|||||...+...        ...
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g---~~v~liDT~G~~~~~~~ve~~gi~~~~~  299 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGG---IPVQVLDTAGIRETSDQVEKIGVERSRQ  299 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETT---EEEEECC--------------------C
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECC---EEEEEEECCccccchhHHHHHHHHHHhh
Confidence            468999999999999999999998654322 223333333333444433   57899999997655432        234


Q ss_pred             cccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCC
Q 028884          103 YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD  182 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  182 (202)
                      +++.+|++++|+|.+++.+... ..|+..+.     ..|+++|+||+|+........  ...+.  ...+++++|+++|.
T Consensus       300 ~~~~aD~vl~VvD~s~~~~~~~-~~i~~~l~-----~~piivV~NK~Dl~~~~~~~~--~~~~~--~~~~~i~iSAktg~  369 (462)
T 3geh_A          300 AANTADLVLLTIDAATGWTTGD-QEIYEQVK-----HRPLILVMNKIDLVEKQLITS--LEYPE--NITQIVHTAAAQKQ  369 (462)
T ss_dssp             CCCSCSEEEEEEETTTCSCHHH-HHHHHHHT-----TSCEEEEEECTTSSCGGGSTT--CCCCT--TCCCEEEEBTTTTB
T ss_pred             hhhcCCEEEEEeccCCCCCHHH-HHHHHhcc-----CCcEEEEEECCCCCcchhhHH--HHHhc--cCCcEEEEECCCCC
Confidence            6788999999999998765443 44544442     368999999999876543320  00111  35679999999999


Q ss_pred             CHHHHHHHHHHHcCCCC
Q 028884          183 NINQLFEEIAKRLPRPS  199 (202)
Q Consensus       183 ~i~~~~~~l~~~i~~~~  199 (202)
                      |+++++++|.+.+....
T Consensus       370 Gi~eL~~~i~~~~~~~~  386 (462)
T 3geh_A          370 GIDSLETAILEIVQTGK  386 (462)
T ss_dssp             SHHHHHHHHHHHHTTSS
T ss_pred             CHHHHHHHHHHHHhccC
Confidence            99999999999887654

>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=99.87  E-value=1.1e-21  Score=147.50  Aligned_cols=164  Identities=18%  Similarity=0.141  Sum_probs=103.1

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCC-CCccc-cceeEEEEEEEecCCcEEEEEEEeCCChhhhhh--------
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDP-TSKVT-VGASFLSQTIALQDSTTVKFEIWDTAGQERYAA--------   98 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~-~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------   98 (202)
                      +....++|+|+|.+|+|||||+++|++..... ...+. .+...........+   ..+.+|||||...+..        
T Consensus        18 ~~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~---~~i~iiDTpG~~~~~~~~~~~~~~   94 (260)
T 2xtp_A           18 ASRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN---REIVIIDTPDMFSWKDHCEALYKE   94 (260)
T ss_dssp             ---CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT---EEEEEEECCGGGGSSCCCHHHHHH
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC---CEEEEEECcCCCCCCCCHHHHHHH
Confidence            34567999999999999999999999876332 22222 23333233333322   5799999999765422        


Q ss_pred             ---cccccccCccEEEEEEeCCChhHH-HHHHHHHHHHHHcCCCCCeEEEEEe-CCCCCCCCCCCh-------HHHHHHH
Q 028884           99 ---LAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGN-KADLHEKREVPA-------QDGIEYA  166 (202)
Q Consensus        99 ---~~~~~~~~~d~~i~v~d~~~~~s~-~~~~~~~~~i~~~~~~~~p~ivv~n-K~D~~~~~~~~~-------~~~~~~~  166 (202)
                         ....+++.+|++|+|+|+++.... ..+..++..+... ....|.++|+| |+|+... ....       .+...+.
T Consensus        95 i~~~~~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~-~~~~~~i~vv~nK~Dl~~~-~~~~~i~~~~~~~~~~~~  172 (260)
T 2xtp_A           95 VQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGE-DAMGHTIVLFTHKEDLNGG-SLMDYMHDSDNKALSKLV  172 (260)
T ss_dssp             HHHHHHHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHHCG-GGGGGEEEEEECGGGGTTC-CHHHHHHHCCCHHHHHHH
T ss_pred             HHHHHHhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCc-hhhccEEEEEEcccccCCc-cHHHHHHhcchHHHHHHH
Confidence               122367889999999999862211 2223333333221 11356666666 9998743 1111       2233455


Q ss_pred             HHcCCeE-----EEeccCCCCCHHHHHHHHHHHcCC
Q 028884          167 EKNGMFF-----IETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       167 ~~~~~~~-----~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      ..++..+     +++||+++.|+.++|++|.+.+..
T Consensus       173 ~~~~~~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~  208 (260)
T 2xtp_A          173 AACGGRICAFNNRAEGSNQDDQVKELMDCIEDLLME  208 (260)
T ss_dssp             HHTTTCEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhCCeEEEecCcccccccHHHHHHHHHHHHHHHHh
Confidence            5555432     688999999999999999988765

>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=99.86  E-value=1.7e-21  Score=149.95  Aligned_cols=118  Identities=16%  Similarity=0.193  Sum_probs=96.2

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCC----------ChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCC
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDIT----------SPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADL  151 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~  151 (202)
                      +.+++||++|++.++..|..++++++++|+|+|++          +..++.+...|+..+... ...++|+++++||+|+
T Consensus       167 v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~~~iiL~~NK~DL  246 (327)
T 3ohm_A          167 VIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDL  246 (327)
T ss_dssp             EEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTTCEEEEEEECHHH
T ss_pred             eeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCCceEEEEEECchh
Confidence            78999999999999999999999999999999665          556777777777776554 2357999999999998


Q ss_pred             CCCC----------------CCChHHHHHHHH----------HcCCeEEEeccCCCCCHHHHHHHHHHHcCCCCC
Q 028884          152 HEKR----------------EVPAQDGIEYAE----------KNGMFFIETSAKTADNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       152 ~~~~----------------~~~~~~~~~~~~----------~~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~~~  200 (202)
                      .+++                ....+++..++.          ..++.++++||+++.|++.+|+.+.+.|.+...
T Consensus       247 ~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~~~Il~~~l  321 (327)
T 3ohm_A          247 LEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLNL  321 (327)
T ss_dssp             HHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHHHHHHHHhH
Confidence            5422                356677777743          345668999999999999999999999876654

>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=99.86  E-value=4e-21  Score=152.69  Aligned_cols=163  Identities=15%  Similarity=0.149  Sum_probs=111.1

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCC-------CCCC-------CccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQ-------FDPT-------SKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA   97 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~-------~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   97 (202)
                      +.++|+++|++++|||||+++|.+..       +...       .....+.........+.... ..+.+|||||++.|.
T Consensus         2 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~~~-~~~~iiDtpG~~~f~   80 (397)
T 1d2e_A            2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAA-RHYAHTDCPGHADYV   80 (397)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSS-CEEEEEECSSHHHHH
T ss_pred             CeEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEeccCC-eEEEEEECCChHHHH
Confidence            46899999999999999999998741       1000       00011111111122222222 579999999999998


Q ss_pred             hcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCCCCC---CChHHHHHHHHHcC---
Q 028884           98 ALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEKRE---VPAQDGIEYAEKNG---  170 (202)
Q Consensus        98 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~~~~---~~~~~~~~~~~~~~---  170 (202)
                      .....++..+|++|+|+|++++...+. .+++..+...   ++| +++++||+|+.....   ....+...+....+   
T Consensus        81 ~~~~~~~~~aD~~ilVvda~~g~~~qt-~e~l~~~~~~---~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~  156 (397)
T 1d2e_A           81 KNMITGTAPLDGCILVVAANDGPMPQT-REHLLLARQI---GVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKG  156 (397)
T ss_dssp             HHHHHTSSCCSEEEEEEETTTCSCHHH-HHHHHHHHHT---TCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCT
T ss_pred             HHHHhhHhhCCEEEEEEECCCCCCHHH-HHHHHHHHHc---CCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCCCc
Confidence            888888999999999999998643333 3333444433   677 689999999864211   11234555666555   


Q ss_pred             --CeEEEeccCCCCC----------HHHHHHHHHHHcCCCC
Q 028884          171 --MFFIETSAKTADN----------INQLFEEIAKRLPRPS  199 (202)
Q Consensus       171 --~~~~~~s~~~~~~----------i~~~~~~l~~~i~~~~  199 (202)
                        ++++++||++|.|          +.++++.|.+.+..+.
T Consensus       157 ~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~p~p~  197 (397)
T 1d2e_A          157 EETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYIPVPT  197 (397)
T ss_dssp             TTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSCCCC
T ss_pred             ccCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhCCCCC
Confidence              5899999999765          8999999999887653

>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=99.86  E-value=1.8e-21  Score=158.30  Aligned_cols=151  Identities=15%  Similarity=0.154  Sum_probs=98.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCC-------------------------------CCCccccceeEEEEEEEecC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFD-------------------------------PTSKVTVGASFLSQTIALQD   79 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~   79 (202)
                      ...++|+++|.+++|||||+++|++....                               .......+.+.....+... 
T Consensus        31 k~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~-  109 (483)
T 3p26_A           31 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTH-  109 (483)
T ss_dssp             CCEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECS-
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecC-
Confidence            56899999999999999999999865110                               0011122233223333322 


Q ss_pred             CcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHH------HHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           80 STTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFN------KAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        80 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~------~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                       . +.+.+|||||++.|...+..++..+|++|+|+|++++.++.      ...+.+..+....  ..|++||+||+|+.+
T Consensus       110 -~-~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~--~~~iIvviNK~Dl~~  185 (483)
T 3p26_A          110 -R-ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLG--IHNLIIAMNKMDNVD  185 (483)
T ss_dssp             -S-CEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHTT--CCCEEEEEECGGGGT
T ss_pred             -C-ceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHcC--CCcEEEEEECcCccc
Confidence             2 68999999999999999999999999999999999875432      2233333333332  246999999999876


Q ss_pred             CCCCChHHHH----HHHHHc-----CCeEEEeccCCCCCHHH
Q 028884          154 KREVPAQDGI----EYAEKN-----GMFFIETSAKTADNINQ  186 (202)
Q Consensus       154 ~~~~~~~~~~----~~~~~~-----~~~~~~~s~~~~~~i~~  186 (202)
                      ......++..    .+....     .++++++||++|.|+.+
T Consensus       186 ~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          186 WSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             chHHHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCccc
Confidence            4332222222    222222     46799999999999874

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.86  E-value=5.8e-22  Score=159.32  Aligned_cols=152  Identities=17%  Similarity=0.175  Sum_probs=98.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCC-ccccceeEEEEEEEecCCcEEEEEEEeCCChh--------hhhhcccccc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTS-KVTVGASFLSQTIALQDSTTVKFEIWDTAGQE--------RYAALAPLYY  104 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~~~  104 (202)
                      .+|+++|.+|+|||||+|+|.+....... .+..+.+.....+.+.+   ..+.+|||||.+        .+...+..++
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~T~d~~~~~~~~~~---~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~   80 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLN---YDFNLIDTGGIDIGDEPFLAQIRQQAEIAM   80 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC-----------CEEEECTTCS---SCCEEEC---------CHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeecCCCCCccceEEEEEEECC---ceEEEEECCCCCCcchhHHHHHHHHHHHHH
Confidence            68999999999999999999987654322 22222233232322222   479999999975        5677778889


Q ss_pred             cCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCC-eEEEeccCCCCC
Q 028884          105 RGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGM-FFIETSAKTADN  183 (202)
Q Consensus       105 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~s~~~~~~  183 (202)
                      +.+|++|+|+|+.++.+...  .++..+.+  ..++|+++|+||+|+.+.....    .++. .++. .++++||++|.|
T Consensus        81 ~~ad~il~vvD~~~~~~~~d--~~~~~~l~--~~~~pvilv~NK~D~~~~~~~~----~~~~-~lg~~~~~~iSA~~g~g  151 (436)
T 2hjg_A           81 DEADVIIFMVNGREGVTAAD--EEVAKILY--RTKKPVVLAVNKLDNTEMRANI----YDFY-SLGFGEPYPISGTHGLG  151 (436)
T ss_dssp             HHCSEEEEEEETTTCSCHHH--HHHHHHHT--TCCSCEEEEEECCCC-----CC----CSSG-GGSSCCCEECBTTTTBT
T ss_pred             HhCCEEEEEEeCCCCCCHHH--HHHHHHHH--HcCCCEEEEEECccCccchhhH----HHHH-HcCCCCeEEEeCcCCCC
Confidence            99999999999998755443  23333222  3478999999999986542211    1122 3344 689999999999


Q ss_pred             HHHHHHHHHHHcCC
Q 028884          184 INQLFEEIAKRLPR  197 (202)
Q Consensus       184 i~~~~~~l~~~i~~  197 (202)
                      +.++++++.+.+.+
T Consensus       152 v~~L~~~i~~~l~~  165 (436)
T 2hjg_A          152 LGDLLDAVAEHFKN  165 (436)
T ss_dssp             HHHHHHHHHHTGGG
T ss_pred             hHHHHHHHHHhcCc
Confidence            99999999998864

>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=99.85  E-value=2.6e-21  Score=154.20  Aligned_cols=163  Identities=13%  Similarity=0.130  Sum_probs=114.2

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhC--------CCCCC---------CccccceeEEEEEEEecCCcEEEEEEEeCCC
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRG--------QFDPT---------SKVTVGASFLSQTIALQDSTTVKFEIWDTAG   92 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~--------~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   92 (202)
                      ....++|+++|++++|||||+++|.+.        .+...         .....+.......+.  ... ..+.+|||||
T Consensus         8 ~~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~--~~~-~~~~iiDtpG   84 (405)
T 2c78_A            8 TKPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYE--TAK-RHYSHVDCPG   84 (405)
T ss_dssp             -CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEE--CSS-CEEEEEECCC
T ss_pred             CCCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEec--cCC-eEEEEEECCC
Confidence            346799999999999999999999873        11110         011222222222222  222 5799999999


Q ss_pred             hhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCCCCCC---ChHHHHHHHHH
Q 028884           93 QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEKREV---PAQDGIEYAEK  168 (202)
Q Consensus        93 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~~~~~---~~~~~~~~~~~  168 (202)
                      ++.|......++..+|++|+|+|++++.. .+..+|+..+...   ++| +++++||+|+......   ...+...+...
T Consensus        85 ~~~f~~~~~~~~~~aD~~ilVvda~~g~~-~qt~~~l~~~~~~---~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~  160 (405)
T 2c78_A           85 HADYIKNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQV---GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQ  160 (405)
T ss_dssp             SGGGHHHHHHHHTTCSSEEEEEETTTCCC-HHHHHHHHHHHHT---TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCEEEEEEECccccCcHHHHHHHHHHHHHHHHH
Confidence            99998888888999999999999998753 3445566655543   577 8899999998742111   12234455555


Q ss_pred             cC-----CeEEEeccCCCCC------------------HHHHHHHHHHHcCCCC
Q 028884          169 NG-----MFFIETSAKTADN------------------INQLFEEIAKRLPRPS  199 (202)
Q Consensus       169 ~~-----~~~~~~s~~~~~~------------------i~~~~~~l~~~i~~~~  199 (202)
                      .+     .+++++||++|.|                  +.++++.|.+.+..+.
T Consensus       161 ~~~~~~~~~~i~~SA~~g~~v~~~~~~~~~~~~~~~~~i~~Ll~~l~~~lp~p~  214 (405)
T 2c78_A          161 YEFPGDEVPVIRGSALLALEQMHRNPKTRRGENEWVDKIWELLDAIDEYIPTPV  214 (405)
T ss_dssp             TTSCTTTSCEEECCHHHHHHHHHHCTTCCTTSCHHHHHHHHHHHHHHHHSCCCC
T ss_pred             hcccccCCCEEEccHHHhhhhhccccccccCCCcccccHHHHHHHHHhhcCCCC
Confidence            54     6799999999987                  8899999998887553

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.85  E-value=7.9e-22  Score=149.51  Aligned_cols=161  Identities=18%  Similarity=0.222  Sum_probs=90.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC--------ccccceeEEEEEEEecCCcEEEEEEEeCCChh-------h
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS--------KVTVGASFLSQTIALQDSTTVKFEIWDTAGQE-------R   95 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-------~   95 (202)
                      ...++|+|+|.+|+|||||+|+|++.......        .++.+.......+.. ++..+.+.+|||||..       .
T Consensus         6 g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~l~liDTpG~~d~~~~~~~   84 (274)
T 3t5d_A            6 GFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKE-GGVQLLLTIVDTPGFGDAVDNSNC   84 (274)
T ss_dssp             -CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC---CCEEEEEEECCCCSCCSCCTTT
T ss_pred             ccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEec-CCeEEEEEEEECCCccccccchhh
Confidence            45799999999999999999998876543332        233333333333322 3344789999999962       1


Q ss_pred             hhhcc-------ccc-------------ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCC
Q 028884           96 YAALA-------PLY-------------YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKR  155 (202)
Q Consensus        96 ~~~~~-------~~~-------------~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~  155 (202)
                      +..+.       ..+             -..+|+++++++.+...-......++..+..    ++|+++|+||+|+....
T Consensus        85 ~~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~----~~pvi~V~nK~D~~~~~  160 (274)
T 3t5d_A           85 WQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE----KVNIIPLIAKADTLTPE  160 (274)
T ss_dssp             THHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT----TSCEEEEESSGGGSCHH
T ss_pred             HHHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc----cCCEEEEEeccCCCCHH
Confidence            11111       111             1237789998877652111222334444432    78999999999986432


Q ss_pred             CCC--hHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          156 EVP--AQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       156 ~~~--~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      +..  ...........+++++++|++++.++.+++++|.+.+.
T Consensus       161 e~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~~p  203 (274)
T 3t5d_A          161 ECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRLP  203 (274)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCCCC-----------CHHHHHTCS
T ss_pred             HHHHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcCCC
Confidence            221  12344455567889999999999999999999988764

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.85  E-value=6.2e-21  Score=155.98  Aligned_cols=116  Identities=13%  Similarity=0.123  Sum_probs=82.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCC---------------CCC-------ccccceeEEEEEEEecCCcEEEEEEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFD---------------PTS-------KVTVGASFLSQTIALQDSTTVKFEIW   88 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~---------------~~~-------~~~~~~~~~~~~~~~~~~~~~~~~i~   88 (202)
                      .+..+|+|+|++++|||||+++|+.....               ...       ....+.......+.+.+   +.+.+|
T Consensus        11 ~~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~---~~i~li   87 (528)
T 3tr5_A           11 AMRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYKD---YLINLL   87 (528)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEETT---EEEEEE
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeCC---EEEEEE
Confidence            35689999999999999999999721100               000       01122222223333332   689999


Q ss_pred             eCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           89 DTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        89 D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      ||||+..|...+..+++.+|++|+|+|++++.+......| ..+.   ..++|+++|+||+|+..
T Consensus        88 DTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~-~~~~---~~~iPiivviNK~Dl~~  148 (528)
T 3tr5_A           88 DTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLM-EVCR---LRHTPIMTFINKMDRDT  148 (528)
T ss_dssp             CCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHH-HHHH---TTTCCEEEEEECTTSCC
T ss_pred             ECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHH---HcCCCEEEEEeCCCCcc
Confidence            9999999999899999999999999999987665555444 3333   33789999999999864

>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=99.85  E-value=1.1e-20  Score=151.80  Aligned_cols=153  Identities=20%  Similarity=0.185  Sum_probs=104.0

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC------------c---------------------cccceeEEEEEE
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS------------K---------------------VTVGASFLSQTI   75 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~------------~---------------------~~~~~~~~~~~~   75 (202)
                      .....++|+++|++++|||||+++|++.......            .                     ...+.+.....+
T Consensus        20 ~~~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~   99 (434)
T 1zun_B           20 ERKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYF   99 (434)
T ss_dssp             TSCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEE
T ss_pred             ccCCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEe
Confidence            3456799999999999999999999875311000            0                     011111112222


Q ss_pred             EecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCC
Q 028884           76 ALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKR  155 (202)
Q Consensus        76 ~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~  155 (202)
                      ..  . ...+.+|||||++.|...+..++..+|++|+|+|++++.. .+..+++..+....  -.|+++|+||+|+.+..
T Consensus       100 ~~--~-~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~-~qt~~~l~~~~~~~--~~~iIvviNK~Dl~~~~  173 (434)
T 1zun_B          100 ST--A-KRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQ-TQTRRHSYIASLLG--IKHIVVAINKMDLNGFD  173 (434)
T ss_dssp             EC--S-SEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSC-HHHHHHHHHHHHTT--CCEEEEEEECTTTTTSC
T ss_pred             ec--C-CceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCc-HHHHHHHHHHHHcC--CCeEEEEEEcCcCCccc
Confidence            21  2 2689999999999998888888999999999999998642 33444555454432  23699999999987532


Q ss_pred             CC----ChHHHHHHHHHcC-----CeEEEeccCCCCCHHHH
Q 028884          156 EV----PAQDGIEYAEKNG-----MFFIETSAKTADNINQL  187 (202)
Q Consensus       156 ~~----~~~~~~~~~~~~~-----~~~~~~s~~~~~~i~~~  187 (202)
                      ..    ...+...++...+     .+++++||++|.|+.++
T Consensus       174 ~~~~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~  214 (434)
T 1zun_B          174 ERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNK  214 (434)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSC
T ss_pred             HHHHHHHHHHHHHHHHHhCCCccCceEEEEeccCCCCcccc
Confidence            11    1234455566666     67999999999999873

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.85  E-value=1.5e-21  Score=140.26  Aligned_cols=117  Identities=15%  Similarity=0.240  Sum_probs=87.2

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCC---CccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccC
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPT---SKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRG  106 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~  106 (202)
                      ..+.++|+|+|.+|+|||||+++|.+..+...   ..++.+..       +   ....+.+||+||.+.+...+..++..
T Consensus        45 ~~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~~-------~---~~~~~~l~Dt~G~~~~~~~~~~~~~~  114 (193)
T 2ged_A           45 GSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAAD-------Y---DGSGVTLVDFPGHVKLRYKLSDYLKT  114 (193)
T ss_dssp             -CCCCEEEEECCTTSSHHHHHHHHHHSSCC------------C-------C---CCTTCSEEEETTCCBSSCCHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceeee-------e---cCCeEEEEECCCCchHHHHHHHHHHh
Confidence            35679999999999999999999999775431   11111111       1   22578999999998887777666665


Q ss_pred             ----ccEEEEEEeCC-ChhHHHHHHHHHHHHHHc----CCCCCeEEEEEeCCCCCCCCC
Q 028884          107 ----AAVAVVVYDIT-SPDSFNKAQYWVKELQKH----GSPDIVMALVGNKADLHEKRE  156 (202)
Q Consensus       107 ----~d~~i~v~d~~-~~~s~~~~~~~~~~i~~~----~~~~~p~ivv~nK~D~~~~~~  156 (202)
                          +|++|+|||++ ++.++..+..|+..+...    ...+.|+++|+||+|+.+...
T Consensus       115 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~  173 (193)
T 2ged_A          115 RAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARP  173 (193)
T ss_dssp             HGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCC
T ss_pred             hcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCCC
Confidence                89999999999 888998888888776543    346899999999999876543

>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=99.84  E-value=2.8e-21  Score=155.27  Aligned_cols=151  Identities=19%  Similarity=0.229  Sum_probs=100.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC--CCCCCC-----------------------------ccccceeEEEEEEEecC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG--QFDPTS-----------------------------KVTVGASFLSQTIALQD   79 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~--~~~~~~-----------------------------~~~~~~~~~~~~~~~~~   79 (202)
                      .+.++|+++|++++|||||+++|+..  .+....                             ....+.+.....+..  
T Consensus         4 k~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~~--   81 (435)
T 1jny_A            4 KPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFET--   81 (435)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEEC--
T ss_pred             CCEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEec--
Confidence            45799999999999999999999874  221100                             111222222222322  


Q ss_pred             CcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHH-------HHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 028884           80 STTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKA-------QYWVKELQKHGSPDIVMALVGNKADLH  152 (202)
Q Consensus        80 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-------~~~~~~i~~~~~~~~p~ivv~nK~D~~  152 (202)
                      .. ..+.+|||||++.|...+..++..+|++|+|+|+++ .+|+..       .+.+..+....  -.|+++++||+|+.
T Consensus        82 ~~-~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~--~~~iivviNK~Dl~  157 (435)
T 1jny_A           82 KK-YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMG--LDQLIVAVNKMDLT  157 (435)
T ss_dssp             SS-CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTT--CTTCEEEEECGGGS
T ss_pred             CC-eEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcC--CCeEEEEEEcccCC
Confidence            22 579999999999999888889999999999999998 556643       33333233221  23589999999987


Q ss_pred             CCC------CCChHHHHHHHHHcC-----CeEEEeccCCCCCHHHH
Q 028884          153 EKR------EVPAQDGIEYAEKNG-----MFFIETSAKTADNINQL  187 (202)
Q Consensus       153 ~~~------~~~~~~~~~~~~~~~-----~~~~~~s~~~~~~i~~~  187 (202)
                      +..      ....++...++...+     ++++++||++|.|+.++
T Consensus       158 ~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~  203 (435)
T 1jny_A          158 EPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHK  203 (435)
T ss_dssp             SSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBC
T ss_pred             CccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCcccccc
Confidence            531      112344555666655     67999999999999743

>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=99.84  E-value=2.7e-20  Score=149.72  Aligned_cols=159  Identities=20%  Similarity=0.180  Sum_probs=102.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCC-CccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcc---------
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPT-SKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALA---------  100 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~---------  100 (202)
                      ...++|+++|++|+|||||+|+|.+...... ..+..+.+.....+.+.+   ..+.+|||+|........         
T Consensus       178 ~~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g---~~~~l~Dt~G~~~~~~~~~~~~e~~~~  254 (439)
T 1mky_A          178 TDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDG---RKYVFVDTAGLRRKSRVEPRTVEKYSN  254 (439)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETT---EEEEESSCSCC-----------CCSCC
T ss_pred             ccCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECC---EEEEEEECCCCccccccchhhHHHHHH
Confidence            3469999999999999999999998754211 122222223233344433   368999999975432211         


Q ss_pred             ---cccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHH-HHH----HcCCe
Q 028884          101 ---PLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIE-YAE----KNGMF  172 (202)
Q Consensus       101 ---~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~-~~~----~~~~~  172 (202)
                         ..+++.+|++++++|++++.+.... .+...+..   .+.|+++|+||+|+.+.......+... +..    ....+
T Consensus       255 ~~~~~~i~~ad~vllv~d~~~~~~~~~~-~i~~~l~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  330 (439)
T 1mky_A          255 YRVVDSIEKADVVVIVLDATQGITRQDQ-RMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSP  330 (439)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSC
T ss_pred             HHHHHHHhhCCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCc
Confidence               2345678999999999986554432 23333332   378999999999987654433333322 222    23578


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHcC
Q 028884          173 FIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       173 ~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      ++++||++|.|++++|+.+.+.+.
T Consensus       331 ~~~~SA~~g~gv~~l~~~i~~~~~  354 (439)
T 1mky_A          331 LIFTSADKGWNIDRMIDAMNLAYA  354 (439)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            999999999999999999987653

>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=99.84  E-value=3.2e-20  Score=153.48  Aligned_cols=158  Identities=18%  Similarity=0.185  Sum_probs=104.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc----cccceeEEEEEE------EecC-----CcEEEEEEEeCCChhhh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK----VTVGASFLSQTI------ALQD-----STTVKFEIWDTAGQERY   96 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~----~~~~~~~~~~~~------~~~~-----~~~~~~~i~D~~G~~~~   96 (202)
                      +.++|+|+|++++|||||+++|.+..+.....    .+.+........      ....     .....+.+|||||++.|
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F   83 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAF   83 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCC
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHH
Confidence            46899999999999999999999764422211    111211111100      0000     01125999999999999


Q ss_pred             hhcccccccCccEEEEEEeCCC---hhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC------------hH-
Q 028884           97 AALAPLYYRGAAVAVVVYDITS---PDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP------------AQ-  160 (202)
Q Consensus        97 ~~~~~~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~------------~~-  160 (202)
                      ..++..+++.+|++|+|+|+++   +.+++.+.    .+..   .++|+++++||+|+.......            .. 
T Consensus        84 ~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~----~l~~---~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~~~~  156 (594)
T 1g7s_A           84 TTLRKRGGALADLAILIVDINEGFKPQTQEALN----ILRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQ  156 (594)
T ss_dssp             TTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHH----HHHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHH
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCccHhHHHHHH----HHHH---cCCeEEEEecccccccccccccCCchHHHHHHhHHH
Confidence            9999999999999999999998   44444332    2332   378999999999986432110            00 


Q ss_pred             ----------HHHHHHHHc---------------CCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          161 ----------DGIEYAEKN---------------GMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       161 ----------~~~~~~~~~---------------~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                                +........               ..+++++||++|.|+++++++|...+.
T Consensus       157 v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~  217 (594)
T 1g7s_A          157 VQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQ  217 (594)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhcc
Confidence                      111111121               237999999999999999999987653

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.84  E-value=7.5e-21  Score=158.00  Aligned_cols=153  Identities=15%  Similarity=0.164  Sum_probs=101.9

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC-------------------------------ccccceeEEEEEEEec
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS-------------------------------KVTVGASFLSQTIALQ   78 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-------------------------------~~~~~~~~~~~~~~~~   78 (202)
                      ....++|+++|++++|||||+++|++.......                               ...++.+.....+...
T Consensus       164 ~k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~  243 (611)
T 3izq_1          164 ALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTH  243 (611)
T ss_dssp             CCCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECS
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecC
Confidence            356899999999999999999999975322111                               0122333333333332


Q ss_pred             CCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhH---H---HHHHHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 028884           79 DSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDS---F---NKAQYWVKELQKHGSPDIVMALVGNKADLH  152 (202)
Q Consensus        79 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~---~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~  152 (202)
                      +   +.+.||||||++.|...+..++..+|++|+|+|++++..   +   .+....+..+...  ...|++||+||+|+.
T Consensus       244 ~---~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~l--gi~~iIVVvNKiDl~  318 (611)
T 3izq_1          244 R---ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL--GIHNLIIAMNKMDNV  318 (611)
T ss_dssp             S---CEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTT--TCCEEEEEEECTTTT
T ss_pred             C---ceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHc--CCCeEEEEEeccccc
Confidence            2   589999999999999988999999999999999998531   1   1222222223322  124599999999987


Q ss_pred             CCCCCCh----HHHHHHHHHc-----CCeEEEeccCCCCCHHHH
Q 028884          153 EKREVPA----QDGIEYAEKN-----GMFFIETSAKTADNINQL  187 (202)
Q Consensus       153 ~~~~~~~----~~~~~~~~~~-----~~~~~~~s~~~~~~i~~~  187 (202)
                      .......    .+...+....     .++++++||++|.|+.++
T Consensus       319 ~~~~~~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          319 DWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             chhHHHHHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            6322222    2233333333     358999999999999864

>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=99.84  E-value=2.4e-21  Score=156.79  Aligned_cols=155  Identities=15%  Similarity=0.152  Sum_probs=89.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC--CCCC-----------------------------CCccccceeEEEEEEEecC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG--QFDP-----------------------------TSKVTVGASFLSQTIALQD   79 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~--~~~~-----------------------------~~~~~~~~~~~~~~~~~~~   79 (202)
                      .+.++|+++|+.++|||||+++|+..  .+..                             ......+.......+.+. 
T Consensus        41 k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~~-  119 (467)
T 1r5b_A           41 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETE-  119 (467)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECS-
T ss_pred             CCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEecC-
Confidence            56799999999999999999999752  1110                             001112222222223322 


Q ss_pred             CcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChh---HHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCCCC
Q 028884           80 STTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD---SFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEKR  155 (202)
Q Consensus        80 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~~~  155 (202)
                       . ..+.+|||||++.|...+...+..+|++|+|+|++++.   +|....++.+.+......++| ++|++||+|+....
T Consensus       120 -~-~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~  197 (467)
T 1r5b_A          120 -H-RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQ  197 (467)
T ss_dssp             -S-EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCS
T ss_pred             -C-eEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCCcc
Confidence             2 68999999999999988888899999999999999863   232222222222222223676 99999999985421


Q ss_pred             ------CCChHHHHHHHHHc-------CCeEEEeccCCCCCHHHHH
Q 028884          156 ------EVPAQDGIEYAEKN-------GMFFIETSAKTADNINQLF  188 (202)
Q Consensus       156 ------~~~~~~~~~~~~~~-------~~~~~~~s~~~~~~i~~~~  188 (202)
                            .....+...++...       .++++++|+++|.|+.+++
T Consensus       198 ~~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          198 WSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             ccHHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence                  11122345555554       4569999999999987644

>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=99.83  E-value=1.3e-20  Score=146.90  Aligned_cols=117  Identities=17%  Similarity=0.231  Sum_probs=91.4

Q ss_pred             cEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCC----------ChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCC
Q 028884           81 TTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDIT----------SPDSFNKAQYWVKELQKH-GSPDIVMALVGNKA  149 (202)
Q Consensus        81 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~  149 (202)
                      ..+.+++||++|++.++.+|..++++++++|+|||++          +..++.....|+..+... ...++|++||+||+
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~  260 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKF  260 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECH
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECc
Confidence            3488999999999999999999999999999999998          678899888888887654 23679999999999


Q ss_pred             CCCCCCC--C-------------------ChHHHHHHHHH----------------cCCeEEEeccCCCCCHHHHHHHHH
Q 028884          150 DLHEKRE--V-------------------PAQDGIEYAEK----------------NGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       150 D~~~~~~--~-------------------~~~~~~~~~~~----------------~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      |+.++..  +                   ..+++..++..                ..+.++++||+++.|++++|+++.
T Consensus       261 DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~v~  340 (354)
T 2xtz_A          261 DIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFKLVD  340 (354)
T ss_dssp             HHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHHHHH
T ss_pred             chhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecchhHHHHHHHHH
Confidence            9743211  1                   13455555432                123468999999999999999999


Q ss_pred             HHcCC
Q 028884          193 KRLPR  197 (202)
Q Consensus       193 ~~i~~  197 (202)
                      +.+.+
T Consensus       341 ~~I~~  345 (354)
T 2xtz_A          341 ETLRR  345 (354)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87754

>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=99.83  E-value=4.2e-22  Score=161.21  Aligned_cols=157  Identities=13%  Similarity=0.146  Sum_probs=106.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++..+|+++|++++|||||+++|.+..+........+.+.....+.+.+   ..+.+|||||++.|..++...+..+|++
T Consensus         2 ~R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~---~~i~~iDTPGhe~f~~~~~~~~~~aD~a   78 (501)
T 1zo1_I            2 PRAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETEN---GMITFLDTPGHAAFTSMRARGAQATDIV   78 (501)
T ss_dssp             CCCCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTS---SCCCEECCCTTTCCTTSBCSSSBSCSSE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECC---EEEEEEECCCcHHHHHHHHHHHhhCCEE
Confidence            3568999999999999999999988654433333333322222222222   3689999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCC--CCChH--HHHHHHHHc--CCeEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKR--EVPAQ--DGIEYAEKN--GMFFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~--~~~~~--~~~~~~~~~--~~~~~~~s~~~~~~i  184 (202)
                      |+|+|++++...+. .+++..+..   .++|+++++||+|+....  .+...  +...+...+  .++++++||++|.|+
T Consensus        79 ILVVda~~g~~~qT-~e~l~~~~~---~~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~gI  154 (501)
T 1zo1_I           79 VLVVAADDGVMPQT-IEAIQHAKA---AQVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGTGI  154 (501)
T ss_dssp             EEEEETTTBSCTTT-HHHHHHHHH---TTCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEEEECCTTTCTTC
T ss_pred             EEEeecccCccHHH-HHHHHHHHh---cCceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccEEEEeeeeccCc
Confidence            99999988532221 222233332   368899999999986421  11100  000011122  368999999999999


Q ss_pred             HHHHHHHHHH
Q 028884          185 NQLFEEIAKR  194 (202)
Q Consensus       185 ~~~~~~l~~~  194 (202)
                      +++|++|...
T Consensus       155 ~eLle~I~~~  164 (501)
T 1zo1_I          155 DELLDAILLQ  164 (501)
T ss_dssp             TTHHHHTTTT
T ss_pred             chhhhhhhhh
Confidence            9999999764

>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=99.83  E-value=4.5e-21  Score=155.01  Aligned_cols=156  Identities=17%  Similarity=0.131  Sum_probs=100.1

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCC--------hhhhhhccccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG--------QERYAALAPLY  103 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G--------~~~~~~~~~~~  103 (202)
                      ...+|+|+|.+|||||||+|+|.+..+..... ..+.............. ..+.+|||||        .+.+...+..+
T Consensus        22 ~~~~V~lvG~~nvGKSTL~n~l~~~~~~~v~~-~~g~t~~~~~~~~~~~~-~~~~liDT~G~~~~~~~~~~~~~~~~~~~   99 (456)
T 4dcu_A           22 GKPVVAIVGRPNVGKSTIFNRIAGERISIVED-TPGVTRDRIYSSAEWLN-YDFNLIDTGGIDIGDEPFLAQIRQQAEIA   99 (456)
T ss_dssp             -CCEEEEECSSSSSHHHHHHHHEEEEEC------------CEEEECTTCS-SCCEEECCCC------CCHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCCcccCC-CCCcceeEEEEEEEECC-ceEEEEECCCCCCcchHHHHHHHHHHHhh
Confidence            35799999999999999999999876543322 22222222222222222 5799999999        77788888889


Q ss_pred             ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCC
Q 028884          104 YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADN  183 (202)
Q Consensus       104 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~  183 (202)
                      ++.+|++|+|+|..++.+  ....|+..+.+  ..++|+++|+||+|+.+...    ...++.......++++||++|.|
T Consensus       100 ~~~ad~il~VvD~~~~~~--~~d~~l~~~l~--~~~~pvilV~NK~D~~~~~~----~~~e~~~lg~~~~~~iSA~~g~g  171 (456)
T 4dcu_A          100 MDEADVIIFMVNGREGVT--AADEEVAKILY--RTKKPVVLAVNKLDNTEMRA----NIYDFYSLGFGEPYPISGTHGLG  171 (456)
T ss_dssp             HHHCSEEEEEEESSSCSC--HHHHHHHHHHT--TCCSCEEEEEECC-------------CCSGGGSSSSEEECCTTTCTT
T ss_pred             HhhCCEEEEEEeCCCCCC--hHHHHHHHHHH--HcCCCEEEEEECccchhhhh----hHHHHHHcCCCceEEeecccccc
Confidence            999999999999887532  22233333222  35789999999999764321    11111111122468999999999


Q ss_pred             HHHHHHHHHHHcCC
Q 028884          184 INQLFEEIAKRLPR  197 (202)
Q Consensus       184 i~~~~~~l~~~i~~  197 (202)
                      +.++++.+.+.+..
T Consensus       172 v~~L~~~i~~~l~~  185 (456)
T 4dcu_A          172 LGDLLDAVAEHFKN  185 (456)
T ss_dssp             HHHHHHHHHTTGGG
T ss_pred             hHHHHHHHHhhccc
Confidence            99999999988753

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.83  E-value=5.8e-21  Score=150.07  Aligned_cols=145  Identities=8%  Similarity=0.019  Sum_probs=103.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      +|+++|++++|||||+++|+        ....+.+.....+...+   ..+.+|||||+++|.......++.+|++|+|+
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~--------~~giTi~~~~~~~~~~~---~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVv   91 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG--------KKGTSSDITMYNNDKEG---RNMVFVDAHSYPKTLKSLITALNISDIAVLCI   91 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS--------EEEEESSSEEEEECSSS---SEEEEEECTTTTTCHHHHHHHHHTCSEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHH--------hCCEEEEeeEEEEecCC---eEEEEEECCChHHHHHHHHHHHHHCCEEEEEE
Confidence            99999999999999999998        22222222233333222   47999999999998777777789999999999


Q ss_pred             eCCChhHHHHHHHHHHHHHHcCCCCCeE-EEEEe-CCCCCCCCCCCh--HHHHHHHHHc---CCeEEE--eccCC---CC
Q 028884          115 DITSPDSFNKAQYWVKELQKHGSPDIVM-ALVGN-KADLHEKREVPA--QDGIEYAEKN---GMFFIE--TSAKT---AD  182 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~~i~~~~~~~~p~-ivv~n-K~D~~~~~~~~~--~~~~~~~~~~---~~~~~~--~s~~~---~~  182 (202)
                      | +.. .+.+..+++..+...   ++|. ++++| |+|+ +......  ++...+....   .+++++  +||++   +.
T Consensus        92 d-~~g-~~~qt~e~~~~~~~~---~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~  165 (370)
T 2elf_A           92 P-PQG-LDAHTGECIIALDLL---GFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWECISLNTNKSAKNPFE  165 (370)
T ss_dssp             C-TTC-CCHHHHHHHHHHHHT---TCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTT
T ss_pred             c-CCC-CcHHHHHHHHHHHHc---CCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEEEecccccccCcCCC
Confidence            9 543 345556666666554   4666 88899 9998 4221111  2333444333   368999  99999   99


Q ss_pred             CHHHHHHHHHHHcC
Q 028884          183 NINQLFEEIAKRLP  196 (202)
Q Consensus       183 ~i~~~~~~l~~~i~  196 (202)
                      |++++++.|.+.+.
T Consensus       166 gi~~L~~~l~~~~~  179 (370)
T 2elf_A          166 GVDELKARINEVAE  179 (370)
T ss_dssp             THHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHhhcc
Confidence            99999999988754

>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=99.83  E-value=1.6e-20  Score=145.03  Aligned_cols=115  Identities=18%  Similarity=0.252  Sum_probs=92.3

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCC----------ChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCC
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDIT----------SPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADL  151 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~  151 (202)
                      +.+++||++|++.++.+|..++++++++|+|+|++          +..++.+...|+..+... ...++|++|++||+|+
T Consensus       161 v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~~piiLv~NK~DL  240 (340)
T 4fid_A          161 IPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKGAVKLIFLNKMDL  240 (340)
T ss_dssp             CEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTTSEEEEEEECHHH
T ss_pred             eeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCCCeEEEEEECchh
Confidence            68999999999999999999999999999999998          667788888888777654 3367999999999997


Q ss_pred             CCCC---------------CCChHHHHHHHHHc---------------------------CCeEEEeccCCCCCHHHHHH
Q 028884          152 HEKR---------------EVPAQDGIEYAEKN---------------------------GMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       152 ~~~~---------------~~~~~~~~~~~~~~---------------------------~~~~~~~s~~~~~~i~~~~~  189 (202)
                      .++.               ....+++..++...                           .+.++++||+++.|++.+|+
T Consensus       241 ~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv~~vF~  320 (340)
T 4fid_A          241 FEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPTNATDGSNIKRVFM  320 (340)
T ss_dssp             HHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEECTTCHHHHHHHHH
T ss_pred             hhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEEEeeCcHHHHHHHH
Confidence            4311               12345555544332                           35688999999999999999


Q ss_pred             HHHHHcCC
Q 028884          190 EIAKRLPR  197 (202)
Q Consensus       190 ~l~~~i~~  197 (202)
                      .+.+.|.+
T Consensus       321 ~v~~~Il~  328 (340)
T 4fid_A          321 LAVDVIMK  328 (340)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988754

>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=99.82  E-value=5.8e-20  Score=159.01  Aligned_cols=165  Identities=15%  Similarity=0.134  Sum_probs=112.0

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCC-------CCCC-------CccccceeEEEEEEEecCCcEEEEEEEeCCChh
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQ-------FDPT-------SKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE   94 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~-------~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   94 (202)
                      ...+.++|+++|++++|||||+++|.+..       +...       ...+.+..+....+.+.... ..+.+|||||++
T Consensus       292 ~~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~-~kI~IIDTPGHe  370 (1289)
T 3avx_A          292 RTKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPT-RHYAHVDCPGHA  370 (1289)
T ss_dssp             CCCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSS-CEEEEEECCCHH
T ss_pred             ccCCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCC-EEEEEEECCChH
Confidence            34568999999999999999999998731       0000       00111111111112222222 689999999999


Q ss_pred             hhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCCCCCC---ChHHHHHHHHHcC
Q 028884           95 RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEKREV---PAQDGIEYAEKNG  170 (202)
Q Consensus        95 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~~~~~---~~~~~~~~~~~~~  170 (202)
                      .|.......+..+|++|+|+|++++.. .+..+++..+...   ++| ++||+||+|+......   ..++...+....+
T Consensus       371 dF~~~mi~gas~AD~aILVVDAtdGv~-~QTrEhL~ll~~l---gIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G  446 (1289)
T 3avx_A          371 DYVKNMITGAAQMDGAILVVAATDGPM-PQTREHILLGRQV---GVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYD  446 (1289)
T ss_dssp             HHHHHHHHTSCCCSEEEEEEETTTCSC-TTHHHHHHHHHHH---TCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhhCCEEEEEEcCCccCc-HHHHHHHHHHHHc---CCCeEEEEEeecccccchhhHHHHHHHHHHHHHhcc
Confidence            998888888999999999999998643 2334455555443   577 7899999998753211   1234455565554


Q ss_pred             -----CeEEEeccCCC--------CCHHHHHHHHHHHcCCC
Q 028884          171 -----MFFIETSAKTA--------DNINQLFEEIAKRLPRP  198 (202)
Q Consensus       171 -----~~~~~~s~~~~--------~~i~~~~~~l~~~i~~~  198 (202)
                           ++++++||++|        .|+.++++.|.+.+..+
T Consensus       447 ~~~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~Ip~P  487 (1289)
T 3avx_A          447 FPGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIPEP  487 (1289)
T ss_dssp             SCTTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHHTSCCC
T ss_pred             ccccceeEEEEEeccCCCCCccccccchhhHhHHhhhcCCC
Confidence                 67999999999        46999999999888754

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.82  E-value=8.3e-21  Score=145.43  Aligned_cols=161  Identities=16%  Similarity=0.148  Sum_probs=101.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc------cccc--------------------eeE--------------
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK------VTVG--------------------ASF--------------   70 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~------~~~~--------------------~~~--------------   70 (202)
                      ...++|+|+|.+|+|||||+|+|++..+.+...      ++..                    ...              
T Consensus        24 ~~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~~i  103 (299)
T 2aka_B           24 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  103 (299)
T ss_dssp             CCCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHHHh
Confidence            456899999999999999999999987642211      1100                    000              


Q ss_pred             ---------EEEEEEecCCcEEEEEEEeCCChh-------------hhhhcccccccCccEEE-EEEeCCChhHHHHHHH
Q 028884           71 ---------LSQTIALQDSTTVKFEIWDTAGQE-------------RYAALAPLYYRGAAVAV-VVYDITSPDSFNKAQY  127 (202)
Q Consensus        71 ---------~~~~~~~~~~~~~~~~i~D~~G~~-------------~~~~~~~~~~~~~d~~i-~v~d~~~~~s~~~~~~  127 (202)
                               ....+.+.......+.+|||||..             .+..++..+++.++.+| +|+|+++..+......
T Consensus       104 ~g~~~gi~~~~~~~~~~~~~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~  183 (299)
T 2aka_B          104 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  183 (299)
T ss_dssp             CSSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHH
T ss_pred             cccCCCccccceEEEEeCCCCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHH
Confidence                     000000000011479999999953             45566777888888666 7999987644333333


Q ss_pred             HHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc--C-CeEEEeccCCCCCHHHHHHHHHHH
Q 028884          128 WVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN--G-MFFIETSAKTADNINQLFEEIAKR  194 (202)
Q Consensus       128 ~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~--~-~~~~~~s~~~~~~i~~~~~~l~~~  194 (202)
                      ++..+.   ..+.|+++|+||+|+.+................  + .+++++||+++.|+++++++|.+.
T Consensus       184 ~~~~~~---~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~  250 (299)
T 2aka_B          184 IAKEVD---PQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  250 (299)
T ss_dssp             HHHHHC---TTCSSEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHH
T ss_pred             HHHHhC---CCCCeEEEEEEccccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHH
Confidence            444443   347899999999998765432222211100011  2 357889999999999999998763

>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=99.81  E-value=2.7e-19  Score=144.45  Aligned_cols=149  Identities=13%  Similarity=0.146  Sum_probs=99.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC--CCCCC-----------------------------CccccceeEEEEEEEecC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG--QFDPT-----------------------------SKVTVGASFLSQTIALQD   79 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~--~~~~~-----------------------------~~~~~~~~~~~~~~~~~~   79 (202)
                      .+.++|+++|++++|||||+++|++.  .+...                             .....+.+.....+..  
T Consensus         5 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~~--   82 (458)
T 1f60_A            5 KSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFET--   82 (458)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEEC--
T ss_pred             CceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEec--
Confidence            35799999999999999999999864  11110                             0011222222222222  


Q ss_pred             CcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChh---HHH---HHHHHHHHHHHcCCCCCe-EEEEEeCCCCC
Q 028884           80 STTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD---SFN---KAQYWVKELQKHGSPDIV-MALVGNKADLH  152 (202)
Q Consensus        80 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~---~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~  152 (202)
                      .. ..+.+|||||++.|......++..+|++|+|+|++++.   +|+   +..+++..+...   ++| +++|+||+|+.
T Consensus        83 ~~-~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~~---~v~~iivviNK~Dl~  158 (458)
T 1f60_A           83 PK-YQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTL---GVRQLIVAVNKMDSV  158 (458)
T ss_dssp             SS-EEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHT---TCCEEEEEEECGGGG
T ss_pred             CC-ceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHHc---CCCeEEEEEEccccc
Confidence            22 68999999999999988888899999999999999863   221   233333333332   455 89999999987


Q ss_pred             CCCC----CChHHHHHHHHHcC-----CeEEEeccCCCCCHH
Q 028884          153 EKRE----VPAQDGIEYAEKNG-----MFFIETSAKTADNIN  185 (202)
Q Consensus       153 ~~~~----~~~~~~~~~~~~~~-----~~~~~~s~~~~~~i~  185 (202)
                      +...    ....+...++...+     ++++++||++|.|+.
T Consensus       159 ~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~  200 (458)
T 1f60_A          159 KWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMI  200 (458)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTT
T ss_pred             cCCHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcc
Confidence            3211    11233444555554     679999999999986

>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=99.80  E-value=4.7e-21  Score=150.31  Aligned_cols=160  Identities=15%  Similarity=0.262  Sum_probs=82.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc-c------ccceeEEEEEEEec-CCcEEEEEEEeCCCh-------hh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK-V------TVGASFLSQTIALQ-DSTTVKFEIWDTAGQ-------ER   95 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-~------~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~-------~~   95 (202)
                      ...++|+|+|++|+|||||+++|++........ +      ..+.......+.+. ++..+.+.+|||||.       +.
T Consensus        35 ~~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~  114 (361)
T 2qag_A           35 GFEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDC  114 (361)
T ss_dssp             CCEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC-------------
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHH
Confidence            557999999999999999999987754322111 0      01121222222222 233468999999998       55


Q ss_pred             hhhccc-------ccccCc-------------cEEEEEEeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884           96 YAALAP-------LYYRGA-------------AVAVVVYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus        96 ~~~~~~-------~~~~~~-------------d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                      +..++.       .+++.+             |+++|+++.. ..++..+. .|+..+    ..++|+|+|+||+|+...
T Consensus       115 ~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~-~~~l~~~d~~~~~~l----~~~~piIlV~NK~Dl~~~  189 (361)
T 2qag_A          115 FKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPF-GHGLKPLDVAFMKAI----HNKVNIVPVIAKADTLTL  189 (361)
T ss_dssp             -CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSS-SSSCCHHHHHHHHHT----CS-SCEEEEEECCSSSCH
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecC-CCCcchhHHHHHHHh----ccCCCEEEEEECCCCCCH
Confidence            554443       333322             3455555532 22343332 343333    357899999999998764


Q ss_pred             CCCCh--HHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          155 REVPA--QDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       155 ~~~~~--~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      ..+..  .++..++..++++++++|++++.+ ++.|..+.+.+.
T Consensus       190 ~ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~  232 (361)
T 2qag_A          190 KERERLKKRILDEIEEHNIKIYHLPDAESDE-DEDFKEQTRLLK  232 (361)
T ss_dssp             HHHHHHHHHHHHHTTCC-CCSCCCC----------CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-chhHHHHHHHHH
Confidence            43332  355566666788999999999988 666666665543

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.80  E-value=3.6e-21  Score=159.45  Aligned_cols=161  Identities=22%  Similarity=0.228  Sum_probs=91.1

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCC-------------------------------CCCccccceeEEEEEEEec
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFD-------------------------------PTSKVTVGASFLSQTIALQ   78 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~   78 (202)
                      ....++|+++|++++|||||+++|++....                               ......++.+.....+...
T Consensus       174 ~k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~~  253 (592)
T 3mca_A          174 PKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFESD  253 (592)
T ss_dssp             CCCEEEEEEECCSSSTHHHHHHHHHHHHHCC-------------------------------------------------
T ss_pred             CCCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEeC
Confidence            456789999999999999999999752100                               0001122222222222222


Q ss_pred             CCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChh---HH---HHHHHHHHHHHHcCCCCCe-EEEEEeCCCC
Q 028884           79 DSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD---SF---NKAQYWVKELQKHGSPDIV-MALVGNKADL  151 (202)
Q Consensus        79 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~---~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~  151 (202)
                         ...+.||||||++.|.......+..+|++|+|+|++++.   .+   .+....+..+...   ++| +|||+||+|+
T Consensus       254 ---~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~l---gip~iIvviNKiDl  327 (592)
T 3mca_A          254 ---KKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRAL---GISEIVVSVNKLDL  327 (592)
T ss_dssp             --------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHS---SCCCEEEEEECGGG
T ss_pred             ---CeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHHc---CCCeEEEEEecccc
Confidence               267999999999999888888899999999999998642   11   1222233333333   455 8999999998


Q ss_pred             CCCCCCC----hHHHHHHH-HHcCC-----eEEEeccCCCCCHH--------------HHHHHHHHHcC
Q 028884          152 HEKREVP----AQDGIEYA-EKNGM-----FFIETSAKTADNIN--------------QLFEEIAKRLP  196 (202)
Q Consensus       152 ~~~~~~~----~~~~~~~~-~~~~~-----~~~~~s~~~~~~i~--------------~~~~~l~~~i~  196 (202)
                      .......    ..+...+. ...++     +++++||++|.|+.              .+++.|...+.
T Consensus       328 ~~~~~~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~e~~~~~~~~w~~g~~Lle~l~~~~p  396 (592)
T 3mca_A          328 MSWSEDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLIQKDSSDLYKWYKGPTLLSALDQLVP  396 (592)
T ss_dssp             GTTCHHHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSCSCCCCGGGGTCCSCCHHHHHHTSCC
T ss_pred             ccccHHHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccccccccccccccchHHHHHHHHhhcc
Confidence            6522111    12233333 33343     69999999999998              78888877654

>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=99.79  E-value=9.4e-19  Score=146.98  Aligned_cols=116  Identities=11%  Similarity=0.058  Sum_probs=81.5

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC------------------ccccceeEEEEEEEecCCcEEEEEEEeCC
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS------------------KVTVGASFLSQTIALQDSTTVKFEIWDTA   91 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   91 (202)
                      ..+..+|+|+|+.|+|||||+++|.+.......                  ....+.......+..  .. +.+.+||||
T Consensus         6 ~~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~--~~-~~~nliDTp   82 (665)
T 2dy1_A            6 GAMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLF--RG-HRVFLLDAP   82 (665)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEE--TT-EEEEEEECC
T ss_pred             cCCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEee--CC-EEEEEEeCC
Confidence            355789999999999999999999853221000                  001122222222222  23 789999999


Q ss_pred             ChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 028884           92 GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH  152 (202)
Q Consensus        92 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~  152 (202)
                      |+..|...+..+++.+|++++|+|+++...... ..++..+...   ++|+++|+||+|+.
T Consensus        83 G~~~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt-~~~~~~~~~~---~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           83 GYGDFVGEIRGALEAADAALVAVSAEAGVQVGT-ERAWTVAERL---GLPRMVVVTKLDKG  139 (665)
T ss_dssp             CSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHH-HHHHHHHHHT---TCCEEEEEECGGGC
T ss_pred             CccchHHHHHHHHhhcCcEEEEEcCCcccchhH-HHHHHHHHHc---cCCEEEEecCCchh
Confidence            999998888889999999999999887643332 3444444433   68899999999986

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.79  E-value=1.6e-18  Score=130.45  Aligned_cols=122  Identities=18%  Similarity=0.165  Sum_probs=81.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc-cccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhccccccc-----
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK-VTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYR-----  105 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~-----  105 (202)
                      +.++|+|+|.+|+|||||+++|++........ +..+.......+...+   ..+.+|||||+..+......+++     
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~---~~l~liDTpG~~~~~~~~~~~~~~i~~~  111 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGG---FTINIIDTPGLVEAGYVNHQALELIKGF  111 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEETT---EEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEECC---eeEEEEECCCCCCcccchHHHHHHHHHH
Confidence            57999999999999999999999977532222 2222222233333322   58999999998765544333332     


Q ss_pred             ----CccEEEEEEeCCChhHHHH-HHHHHHHHHHcCCCC--CeEEEEEeCCCCCCCCCC
Q 028884          106 ----GAAVAVVVYDITSPDSFNK-AQYWVKELQKHGSPD--IVMALVGNKADLHEKREV  157 (202)
Q Consensus       106 ----~~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~--~p~ivv~nK~D~~~~~~~  157 (202)
                          .+|++++|++++... +.. ...|+..+......+  .|+++|+||+|+......
T Consensus       112 l~~~~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~~~~  169 (262)
T 3def_A          112 LVNRTIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPPDEL  169 (262)
T ss_dssp             TTTCEECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCSTTC
T ss_pred             HhcCCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCCCCc
Confidence                689999999987653 332 346666666543322  489999999998654433

>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=99.79  E-value=3.2e-19  Score=129.72  Aligned_cols=161  Identities=16%  Similarity=0.140  Sum_probs=99.9

Q ss_pred             CCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChh----------hhh
Q 028884           28 DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE----------RYA   97 (202)
Q Consensus        28 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~   97 (202)
                      .+.....+|+++|++|+|||||+++|.+..+.....++.+.......+.+.+    .+.+||+||..          .+.
T Consensus        21 ~~~~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~   96 (210)
T 1pui_A           21 LPSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD----GKRLVDLPGYGYAEVPEEMKRKWQ   96 (210)
T ss_dssp             SSCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET----TEEEEECCCCC------CCHHHHH
T ss_pred             CCCCCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC----CEEEEECcCCcccccCHHHHHHHH
Confidence            4456678999999999999999999998653222233333322222222222    37799999963          233


Q ss_pred             hcccccc---cCccEEEEEEeCCChhHHH--HHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC--ChHHHHHHHHHcC
Q 028884           98 ALAPLYY---RGAAVAVVVYDITSPDSFN--KAQYWVKELQKHGSPDIVMALVGNKADLHEKREV--PAQDGIEYAEKNG  170 (202)
Q Consensus        98 ~~~~~~~---~~~d~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~~~~  170 (202)
                      .....++   ..++++++++|++.+.+..  .+..|+   ..   .+.|+++++||+|+......  ....+..++....
T Consensus        97 ~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~---~~---~~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~~~  170 (210)
T 1pui_A           97 RALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWA---VD---SNIAVLVLLTKADKLASGARKAQLNMVREAVLAFN  170 (210)
T ss_dssp             HHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHH---HH---TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGC
T ss_pred             HHHHHHHHhhhcccEEEEEEECCCCCchhHHHHHHHH---HH---cCCCeEEEEecccCCCchhHHHHHHHHHHHHHhcC
Confidence            2223333   5689999999999864443  222332   22   36889999999997643211  1234444444443


Q ss_pred             --CeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          171 --MFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       171 --~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                        +.++++|++++.|+++++++|.+.+.+.
T Consensus       171 ~~~~~~~~Sal~~~~~~~l~~~l~~~~~~~  200 (210)
T 1pui_A          171 GDVQVETFSSLKKQGVDKLRQKLDTWFSEM  200 (210)
T ss_dssp             SCEEEEECBTTTTBSHHHHHHHHHHHHC--
T ss_pred             CCCceEEEeecCCCCHHHHHHHHHHHHhhc
Confidence              4678999999999999999999887653

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.78  E-value=5.6e-19  Score=148.91  Aligned_cols=163  Identities=17%  Similarity=0.211  Sum_probs=106.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEE--------EEEecCCc---------------------
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQ--------TIALQDST---------------------   81 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~---------------------   81 (202)
                      ...++|+|+|.+|+|||||+|+|++....+......+......        ...+.++.                     
T Consensus        67 ~~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~  146 (695)
T 2j69_A           67 QGVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEA  146 (695)
T ss_dssp             HCCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTCCCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCccceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHH
Confidence            3579999999999999999999998775443322222100000        11000000                     


Q ss_pred             ------------------------E--EEEEEEeCCChhhh---hhcccccccCccEEEEEEeCCChhHHHHHHHHHHHH
Q 028884           82 ------------------------T--VKFEIWDTAGQERY---AALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKEL  132 (202)
Q Consensus        82 ------------------------~--~~~~i~D~~G~~~~---~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i  132 (202)
                                              .  ..+.+|||||....   ...+..+++.+|++|+|+|++++.+......|...+
T Consensus       147 ~~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l  226 (695)
T 2j69_A          147 KKLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYI  226 (695)
T ss_dssp             HHHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHT
T ss_pred             HHHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHH
Confidence                                    0  24899999997653   345667888999999999999887776665554444


Q ss_pred             HHcCCCCCeEEEEEeCCCCCCCCCCChH---H-------HHH-----HHHH--------cCCeEEEeccC----------
Q 028884          133 QKHGSPDIVMALVGNKADLHEKREVPAQ---D-------GIE-----YAEK--------NGMFFIETSAK----------  179 (202)
Q Consensus       133 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~---~-------~~~-----~~~~--------~~~~~~~~s~~----------  179 (202)
                      ..   .+.|+++|+||+|+........+   +       ...     +...        ...+++++||+          
T Consensus       227 ~~---~~~~iiiVlNK~Dl~~~~~~~~ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~  303 (695)
T 2j69_A          227 KG---RGLTVFFLVNAWDQVRESLIDPDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNP  303 (695)
T ss_dssp             TT---SCCCEEEEEECGGGGGGGCSSTTCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCT
T ss_pred             Hh---hCCCEEEEEECcccccccccChhhHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCc
Confidence            32   36789999999998643211110   1       111     1111        12368999999          


Q ss_pred             ----CCCCHHHHHHHHHHHcC
Q 028884          180 ----TADNINQLFEEIAKRLP  196 (202)
Q Consensus       180 ----~~~~i~~~~~~l~~~i~  196 (202)
                          ++.|++++++.|.+.+.
T Consensus       304 ~~~~~~~Gi~~L~~~L~~~l~  324 (695)
T 2j69_A          304 QADLDGTGFPKFMDSLNTFLT  324 (695)
T ss_dssp             TCCCTTSSHHHHHHHHHHHHH
T ss_pred             hhhhhccCHHHHHHHHHHHHH
Confidence                99999999999988664

>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=99.78  E-value=3.4e-18  Score=144.13  Aligned_cols=117  Identities=15%  Similarity=0.134  Sum_probs=82.4

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhC--CCC------CC----------CccccceeEEEEEEEecCCcEEEEEEEeCC
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRG--QFD------PT----------SKVTVGASFLSQTIALQDSTTVKFEIWDTA   91 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~--~~~------~~----------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   91 (202)
                      ..+..+|+|+|++++|||||+++|+..  .+.      ..          .....+.......+.+.  . +.+.+||||
T Consensus         9 ~~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~~--~-~~i~liDTP   85 (691)
T 1dar_A            9 LKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWK--D-HRINIIDTP   85 (691)
T ss_dssp             GGGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEEET--T-EEEEEECCC
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEEC--C-eEEEEEECc
Confidence            356899999999999999999999842  110      00          01111122222222322  2 689999999


Q ss_pred             ChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           92 GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        92 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      |+..|...+..+++.+|++|+|+|++++.++.....|.. +..   .++|+++|+||+|+..
T Consensus        86 G~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~---~~~p~ivviNKiD~~~  143 (691)
T 1dar_A           86 GHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEK---YKVPRIAFANKMDKTG  143 (691)
T ss_dssp             SSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTT
T ss_pred             CccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHH-HHH---cCCCEEEEEECCCccc
Confidence            999998888899999999999999998876666555543 333   3789999999999864

>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=99.77  E-value=1.1e-17  Score=136.95  Aligned_cols=116  Identities=12%  Similarity=0.085  Sum_probs=78.2

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC----------------------ccccceeEEEEEEEecCCcEEEEEEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS----------------------KVTVGASFLSQTIALQDSTTVKFEIW   88 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~~i~   88 (202)
                      .+..+|+|+|++++|||||+++|+........                      ....+.......+.+  .. +.+.+|
T Consensus        11 ~~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~--~~-~~i~li   87 (529)
T 2h5e_A           11 AKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPY--HD-CLVNLL   87 (529)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEE--TT-EEEEEE
T ss_pred             cCCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEE--CC-eEEEEE
Confidence            35789999999999999999999963210000                      000111111112222  22 689999


Q ss_pred             eCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           89 DTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        89 D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      ||||+..|...+..+++.+|++|+|+|++++.... ...++..+   ...++|+++|+||+|+..
T Consensus        88 DTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~-t~~~~~~~---~~~~ipiivviNK~Dl~~  148 (529)
T 2h5e_A           88 DTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDR-TRKLMEVT---RLRDTPILTFMNKLDRDI  148 (529)
T ss_dssp             CCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHH-HHHHHHHH---TTTTCCEEEEEECTTSCC
T ss_pred             ECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHH-HHHHHHHH---HHcCCCEEEEEcCcCCcc
Confidence            99999998888888899999999999999864322 22332322   234789999999999864

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=99.76  E-value=1.4e-18  Score=134.07  Aligned_cols=112  Identities=14%  Similarity=0.069  Sum_probs=69.8

Q ss_pred             EEEEEEeCCChhh-------------hhhcccccccCccEEEEEEeCCC-hhHHHHHHHHHHHHHHcCCCCCeEEEEEeC
Q 028884           83 VKFEIWDTAGQER-------------YAALAPLYYRGAAVAVVVYDITS-PDSFNKAQYWVKELQKHGSPDIVMALVGNK  148 (202)
Q Consensus        83 ~~~~i~D~~G~~~-------------~~~~~~~~~~~~d~~i~v~d~~~-~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK  148 (202)
                      ..+.+|||||...             +...+..+++.+|++++|+|.++ .........++..+   ...+.|+++|+||
T Consensus       131 ~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~---~~~~~~~i~v~NK  207 (315)
T 1jwy_B          131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEV---DPEGKRTIGVITK  207 (315)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHH---CSSCSSEEEEEEC
T ss_pred             CCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHh---CCCCCcEEEEEcC
Confidence            4699999999642             45667778889999999999743 21111111222223   2347899999999


Q ss_pred             CCCCCCCCCChHHHHHHHHHcCCeEEEec---cCC---CCCHHHHHHHHHHHcCC
Q 028884          149 ADLHEKREVPAQDGIEYAEKNGMFFIETS---AKT---ADNINQLFEEIAKRLPR  197 (202)
Q Consensus       149 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~s---~~~---~~~i~~~~~~l~~~i~~  197 (202)
                      +|+..................+..+++++   +.+   +.|+.++++.+.+.+..
T Consensus       208 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~~  262 (315)
T 1jwy_B          208 LDLMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSEILYFKN  262 (315)
T ss_dssp             TTSSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHHHT
T ss_pred             cccCCcchHHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHHHHHHhC
Confidence            99876543222222210011224566665   444   78999999998887754

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=99.76  E-value=3.1e-19  Score=140.16  Aligned_cols=156  Identities=15%  Similarity=0.126  Sum_probs=103.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEE----------------------------------------
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLS----------------------------------------   72 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~----------------------------------------   72 (202)
                      ..+|+|+|.+|+|||||+|+|.+..+.+......+.....                                        
T Consensus        34 lp~I~vvG~~~sGKSSLln~l~g~~~lp~~~~~vT~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~~  113 (360)
T 3t34_A           34 LPAIAVVGGQSSGKSSVLESIVGKDFLPRGSGIVTRRPLVLQLQKIDDGTREYAEFLHLPRKKFTDFAAVRKEIQDETDR  113 (360)
T ss_dssp             CCEEEEECBTTSSHHHHHHHHHTSCCSCCCSSSCCCSCEEEEEEECSSCSCCEEEETTSTTCCBSCHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCcCCCCCCcccCcceEEEEecCCCcccceeeeecCCCcccCCHHHHHHHHHHHHHH
Confidence            4499999999999999999999977643332222100000                                        


Q ss_pred             ------------EEEEecCCcEEEEEEEeCCChhhh-------------hhcccccccCccEEEEEEeCCChhHHHHHHH
Q 028884           73 ------------QTIALQDSTTVKFEIWDTAGQERY-------------AALAPLYYRGAAVAVVVYDITSPDSFNKAQY  127 (202)
Q Consensus        73 ------------~~~~~~~~~~~~~~i~D~~G~~~~-------------~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~  127 (202)
                                  ..+.+.......+.+|||||...+             ..+...+++.+|++|+++|..+.....  ..
T Consensus       114 ~~g~~~~~s~~~i~l~i~~~~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--~~  191 (360)
T 3t34_A          114 ETGRSKAISSVPIHLSIYSPNVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--SD  191 (360)
T ss_dssp             TSCTTCCCCCSCEEEEEEETTSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--CH
T ss_pred             hcCCCCCcccceEEEEEeCCCCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--HH
Confidence                        001111111135899999997654             566777899999999999876532221  33


Q ss_pred             HHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          128 WVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       128 ~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |+..+......+.|+++|+||+|+.+...........+...++.+++.++++.+.++++.+..
T Consensus       192 ~~~l~~~~~~~~~~~i~V~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~~~~  254 (360)
T 3t34_A          192 AIKISREVDPSGDRTFGVLTKIDLMDKGTDAVEILEGRSFKLKYPWVGVVNRSQADINKNVDM  254 (360)
T ss_dssp             HHHHHHHSCTTCTTEEEEEECGGGCCTTCCSHHHHTTSSSCCSSCCEEECCCCHHHHHTTCCH
T ss_pred             HHHHHHHhcccCCCEEEEEeCCccCCCcccHHHHHcCccccccCCeEEEEECChHHhccCCCH
Confidence            455555555567899999999998765554444444444456778999999998877765443

>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=99.76  E-value=2.9e-17  Score=138.68  Aligned_cols=119  Identities=14%  Similarity=0.080  Sum_probs=82.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC--CCCCC------C----------ccccceeEEEEEEEecC----CcEEEEEEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG--QFDPT------S----------KVTVGASFLSQTIALQD----STTVKFEIW   88 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~--~~~~~------~----------~~~~~~~~~~~~~~~~~----~~~~~~~i~   88 (202)
                      .+..+|+|+|+.++|||||+++|+..  .+...      .          ...++.......+.+.+    +..+.+.+|
T Consensus         8 ~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~li   87 (704)
T 2rdo_7            8 ARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINII   87 (704)
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEEEE
Confidence            45789999999999999999999753  11100      0          01112222222222222    233789999


Q ss_pred             eCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           89 DTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        89 D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      ||||+..|...+..+++.+|++|+|+|+++.........| ..+.   ..++|+++|+||+|+..
T Consensus        88 DTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~-~~~~---~~~ip~ilviNKiD~~~  148 (704)
T 2rdo_7           88 DTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVW-RQAN---KYKVPRIAFVNKMDRMG  148 (704)
T ss_pred             eCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHH-HHHH---HcCCCEEEEEeCCCccc
Confidence            9999999988888899999999999999987555444444 2232   23689999999999854

>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=99.75  E-value=6.2e-18  Score=134.29  Aligned_cols=161  Identities=17%  Similarity=0.137  Sum_probs=106.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh----hhhccc---ccccC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER----YAALAP---LYYRG  106 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~---~~~~~  106 (202)
                      -.|+++|.+|+|||||++.+.+........+..+.......+...+  ...+.+||+||...    +..+..   ..+..
T Consensus       158 ~~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~~--~~~~~l~DtpGli~~a~~~~~L~~~fl~~~er  235 (416)
T 1udx_A          158 ADVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSE--EERFTLADIPGIIEGASEGKGLGLEFLRHIAR  235 (416)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSS--SCEEEEEECCCCCCCGGGSCCSCHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCccccCcccceecceeeEEEecC--cceEEEEeccccccchhhhhhhhHHHHHHHHH
Confidence            4578999999999999999998642111111111122222233322  14789999999632    111211   22456


Q ss_pred             ccEEEEEEeCCChhHHHHHHHHHHHHHHcC--CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCH
Q 028884          107 AAVAVVVYDITSPDSFNKAQYWVKELQKHG--SPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i  184 (202)
                      ++.+++++|++ ...+..+..|...+....  ....|.++|+||+|+...  .............+.+++.+||+++.|+
T Consensus       236 a~~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~--~~~~~l~~~l~~~g~~vi~iSA~~g~gi  312 (416)
T 1udx_A          236 TRVLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE--EAVKALADALAREGLAVLPVSALTGAGL  312 (416)
T ss_dssp             SSEEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH--HHHHHHHHHHHTTTSCEEECCTTTCTTH
T ss_pred             HHhhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH--HHHHHHHHHHHhcCCeEEEEECCCccCH
Confidence            89999999997 444666666665554432  125789999999997653  2233344445556778999999999999


Q ss_pred             HHHHHHHHHHcCCCC
Q 028884          185 NQLFEEIAKRLPRPS  199 (202)
Q Consensus       185 ~~~~~~l~~~i~~~~  199 (202)
                      ++++++|.+.+.+.+
T Consensus       313 ~eL~~~i~~~l~~~~  327 (416)
T 1udx_A          313 PALKEALHALVRSTP  327 (416)
T ss_dssp             HHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999887654

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.75  E-value=1.3e-17  Score=140.63  Aligned_cols=117  Identities=17%  Similarity=0.157  Sum_probs=82.1

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHh--CCCCCC---C-------------ccccceeEEEEEEEecCCcEEEEEEEeCC
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVR--GQFDPT---S-------------KVTVGASFLSQTIALQDSTTVKFEIWDTA   91 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~--~~~~~~---~-------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   91 (202)
                      ..+..+|+|+|++|+|||||+++|+.  +.+...   .             ....+.......+.+.  . +.+.+||||
T Consensus         7 ~~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~--~-~~i~liDTP   83 (693)
T 2xex_A            7 LEKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWE--G-HRVNIIDTP   83 (693)
T ss_dssp             STTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEET--T-EEEEEECCC
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEEC--C-eeEEEEECc
Confidence            35678999999999999999999995  221100   0             0111111112223322  2 689999999


Q ss_pred             ChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           92 GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        92 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      |+..+...+..+++.+|++|+|+|++++.+......|.. +..   .++|+++|+||+|+..
T Consensus        84 G~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~~---~~~p~ilviNK~Dl~~  141 (693)
T 2xex_A           84 GHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ-ATT---YGVPRIVFVNKMDKLG  141 (693)
T ss_dssp             CCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTT
T ss_pred             CCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH-HHH---cCCCEEEEEECCCccc
Confidence            999888888888999999999999998866665555533 333   3689999999999864

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.75  E-value=1.4e-17  Score=125.83  Aligned_cols=122  Identities=14%  Similarity=0.129  Sum_probs=79.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc-cccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhccc-------c
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK-VTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAP-------L  102 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~-------~  102 (202)
                      ...++|+|+|.+|+|||||+|+|++..+..... +..+.......+.  ... ..+.+|||||...+.....       .
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~--~~~-~~l~iiDTpG~~~~~~~~~~~~~~i~~  113 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRS--RAG-FTLNIIDTPGLIEGGYINDMALNIIKS  113 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEE--ETT-EEEEEEECCCSEETTEECHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeeEEEEEe--eCC-eEEEEEECCCCCCCccchHHHHHHHHH
Confidence            357999999999999999999999877533222 1222222122222  222 6899999999865432211       1


Q ss_pred             --cccCccEEEEEEeCCChhHHHH-HHHHHHHHHHcCCCC--CeEEEEEeCCCCCCCCC
Q 028884          103 --YYRGAAVAVVVYDITSPDSFNK-AQYWVKELQKHGSPD--IVMALVGNKADLHEKRE  156 (202)
Q Consensus       103 --~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~i~~~~~~~--~p~ivv~nK~D~~~~~~  156 (202)
                        ..+.+|++|+|+|++.. ++.. ...|+..+......+  .|+++|+||+|+.....
T Consensus       114 ~~~~~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~~  171 (270)
T 1h65_A          114 FLLDKTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDG  171 (270)
T ss_dssp             HTTTCEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGG
T ss_pred             HhhcCCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcCC
Confidence              13468999999998753 2332 246666665543323  68999999999865443

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=99.73  E-value=1.7e-18  Score=137.12  Aligned_cols=86  Identities=16%  Similarity=0.077  Sum_probs=47.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccce--eEEEEEEE-------------------ecCCcEEEEEEEeCCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGA--SFLSQTIA-------------------LQDSTTVKFEIWDTAG   92 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~--~~~~~~~~-------------------~~~~~~~~~~i~D~~G   92 (202)
                      ++|+++|.+|+|||||+|+|.+........+..+.  ......+.                   +.+...+.+.+|||||
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG   80 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCC
Confidence            58999999999999999999987632112211111  11111111                   1111236899999999


Q ss_pred             hhh----hhhcc---cccccCccEEEEEEeCCCh
Q 028884           93 QER----YAALA---PLYYRGAAVAVVVYDITSP  119 (202)
Q Consensus        93 ~~~----~~~~~---~~~~~~~d~~i~v~d~~~~  119 (202)
                      ...    ...+.   ..+++.+|++++|+|+++.
T Consensus        81 ~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTCC
T ss_pred             cccchhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            753    22222   2457899999999999874

>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=99.71  E-value=2.8e-17  Score=130.63  Aligned_cols=163  Identities=15%  Similarity=0.226  Sum_probs=81.9

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCcc------ccceeEEEEEEEec-CCcEEEEEEEeCCChhhhh----
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV------TVGASFLSQTIALQ-DSTTVKFEIWDTAGQERYA----   97 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~------~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~----   97 (202)
                      ...-.++|+|+|++|+|||||++.|.+..+......      ..+.......+... .+....+.+||++|...+.    
T Consensus        27 l~~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~  106 (418)
T 2qag_C           27 KRGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSN  106 (418)
T ss_dssp             C-CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC----------
T ss_pred             ecCCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchh
Confidence            345578999999999999999999998765211110      00111111111111 2222578999999975431    


Q ss_pred             ---h------------------cccccccCccE--EEEEEeCCChhHHHHH-HHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           98 ---A------------------LAPLYYRGAAV--AVVVYDITSPDSFNKA-QYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        98 ---~------------------~~~~~~~~~d~--~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                         .                  +.+.++..+++  ++|+++.+. .++... ..|+..+.    .++|+|+|+||+|+..
T Consensus       107 ~~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~-~~L~~~d~~~lk~L~----~~v~iIlVinK~Dll~  181 (418)
T 2qag_C          107 CWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSG-HGLKPLDIEFMKRLH----EKVNIIPLIAKADTLT  181 (418)
T ss_dssp             -CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-C-CSCCHHHHHHHHHHT----TTSEEEEEEESTTSSC
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcc-cCCCHHHHHHHHHHh----ccCcEEEEEEcccCcc
Confidence               1                  12334555554  444444431 123333 35655553    3789999999999876


Q ss_pred             CCCCCh--HHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          154 KREVPA--QDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       154 ~~~~~~--~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      ..++..  ..+..++...+++++++|++++.++.++|..+.+.++
T Consensus       182 ~~ev~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~iP  226 (418)
T 2qag_C          182 PEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRLP  226 (418)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCCCCCCC-----------------CC
T ss_pred             HHHHHHHHHHHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHhhCC
Confidence            544333  5566777788999999999999999999888877654

>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=99.71  E-value=2.8e-18  Score=131.44  Aligned_cols=164  Identities=14%  Similarity=0.225  Sum_probs=84.8

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhC-CCCCCCc------cccceeEEEEEEEec-CCcEEEEEEEeCCCh-------h
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRG-QFDPTSK------VTVGASFLSQTIALQ-DSTTVKFEIWDTAGQ-------E   94 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~-~~~~~~~------~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~-------~   94 (202)
                      ....++|+|+|++|+|||||+++|.+. .+.....      ...+.......+... .+....+.+||++|.       +
T Consensus        15 ~~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e   94 (301)
T 2qnr_A           15 KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRD   94 (301)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC----------
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHH
Confidence            345799999999999999999998875 3322210      001111111112111 223368999999997       3


Q ss_pred             hhhhccc-------cccc-------------CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884           95 RYAALAP-------LYYR-------------GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus        95 ~~~~~~~-------~~~~-------------~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                      .+..+..       .+++             .+++++++.+.+.. +++...  ++.+... ....++++|+||+|+...
T Consensus        95 ~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~-~Ld~~~--~~~l~~l-~~~~~iilV~~K~Dl~~~  170 (301)
T 2qnr_A           95 CFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGH-GLKPLD--VAFMKAI-HNKVNIVPVIAKADTLTL  170 (301)
T ss_dssp             -CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSS-SCCHHH--HHHHHHH-TTTSCEEEEECCGGGSCH
T ss_pred             HHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCccc-CCCHHH--HHHHHHH-HhcCCEEEEEEeCCCCCH
Confidence            3333322       2222             23446666654321 122221  1223333 246789999999998754


Q ss_pred             CCC--ChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          155 REV--PAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       155 ~~~--~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      .+.  ..+++.+++...+++++++||+++ |++++|..+.+.+.+.
T Consensus       171 ~e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~  215 (301)
T 2qnr_A          171 KERERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKAS  215 (301)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCCCCCC----------CHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhcC
Confidence            332  235667788888999999999999 9999999999887543

>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=99.70  E-value=4.7e-18  Score=130.31  Aligned_cols=134  Identities=22%  Similarity=0.215  Sum_probs=106.7

Q ss_pred             HHHHHHHhCCCC-CCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChh-HHHHH
Q 028884           48 CIVLRFVRGQFD-PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPD-SFNKA  125 (202)
Q Consensus        48 sli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~  125 (202)
                      +|+.++..+.+. ..+.++++..+. ..  ...+.  .+++||+  +++++.+++.+++++|++|+|||++++. ++..+
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~-~~--~~~~~--~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l  104 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVE-YT--PDETG--SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYII  104 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEE-EE--CCCSS--SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHH
T ss_pred             cEEEEEEcccccccCCCCCCccEEE-EE--EcCCC--eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHH
Confidence            688888888887 677788874443 22  22222  6899999  8889999999999999999999999987 68888


Q ss_pred             HHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcC--CeEEEeccCCCCCHHHHHHHHHH
Q 028884          126 QYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNG--MFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       126 ~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      ..|+..+..   .++|+++|+||+|+.+...+  ++...++..+.  .+++++||++|.|++++|+.+..
T Consensus       105 ~~~l~~~~~---~~~piilv~NK~DL~~~~~v--~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          105 DKFLVLAEK---NELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             HHHHHHHHH---TTCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHSS
T ss_pred             HHHHHHHHH---CCCCEEEEEeHHHcCCchhH--HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhcC
Confidence            999987765   37899999999998654322  34566666666  88999999999999999998754

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.70  E-value=4.2e-16  Score=128.12  Aligned_cols=116  Identities=12%  Similarity=0.109  Sum_probs=81.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCC------------------C----CCCCccccceeEEEEEEEecCCcEEEEEEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQ------------------F----DPTSKVTVGASFLSQTIALQDSTTVKFEIW   88 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~------------------~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   88 (202)
                      .+.-||+|+|+.++|||||.++|+...                  +    .......++.......+.+.+   +.++|+
T Consensus        29 ~r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~~---~~iNlI  105 (548)
T 3vqt_A           29 ARRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYRD---RVVNLL  105 (548)
T ss_dssp             HTEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEETT---EEEEEE
T ss_pred             cccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEECC---EEEEEE
Confidence            356899999999999999999996310                  0    011112223323333344433   689999


Q ss_pred             eCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           89 DTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        89 D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      ||||+..|.......++.+|++|+|+|+..+-..+...-| .....   .++|.++++||+|...
T Consensus       106 DTPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~-~~a~~---~~lp~i~fINK~Dr~~  166 (548)
T 3vqt_A          106 DTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLM-DVCRM---RATPVMTFVNKMDREA  166 (548)
T ss_dssp             CCCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHH-HHHHH---TTCCEEEEEECTTSCC
T ss_pred             eCCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHH-HHHHH---hCCceEEEEecccchh
Confidence            9999999999999999999999999999988544444444 33333   3789999999999754

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=99.66  E-value=3.1e-17  Score=128.48  Aligned_cols=160  Identities=15%  Similarity=0.136  Sum_probs=94.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEE---------------------------------------
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFL---------------------------------------   71 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~---------------------------------------   71 (202)
                      ....+|+|+|.+++|||||+|+|++..+.+......+....                                       
T Consensus        29 ~~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i  108 (353)
T 2x2e_A           29 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  108 (353)
T ss_dssp             CCCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHh
Confidence            34679999999999999999999997764222111000000                                       


Q ss_pred             ----------EEEEEecCCcEEEEEEEeCCChh-------------hhhhcccccccCc-cEEEEEEeCCChhHHHHHHH
Q 028884           72 ----------SQTIALQDSTTVKFEIWDTAGQE-------------RYAALAPLYYRGA-AVAVVVYDITSPDSFNKAQY  127 (202)
Q Consensus        72 ----------~~~~~~~~~~~~~~~i~D~~G~~-------------~~~~~~~~~~~~~-d~~i~v~d~~~~~s~~~~~~  127 (202)
                                ...+.+.......+.+|||||..             .+..+...++..+ +++++++|++....-..   
T Consensus       109 ~g~~~gi~~~~~~~~i~~~~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~---  185 (353)
T 2x2e_A          109 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSD---  185 (353)
T ss_dssp             HTTTTCCCCCCEEEEEEETTCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCH---
T ss_pred             cccCCCcccCceEEEEecCCCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhH---
Confidence                      00011111112469999999952             3455666666555 45566777765422122   


Q ss_pred             HHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHH--HHHcC-CeEEEeccCCCCCHHHHHHHHHH
Q 028884          128 WVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEY--AEKNG-MFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       128 ~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~--~~~~~-~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      ++..+......+.|+++|+||+|+.+............  ....+ ..++++||+++.|++++++++.+
T Consensus       186 ~~~i~~~~~~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          186 ALKVAKEVDPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             HHHHHHHHCTTCTTEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHhCcCCCceEEEeccccccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            22223333345789999999999875433211111100  00112 24678999999999999998876

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.66  E-value=1.8e-16  Score=116.09  Aligned_cols=157  Identities=16%  Similarity=0.110  Sum_probs=94.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeE------------EEEEEEecC-----------------CcE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASF------------LSQTIALQD-----------------STT   82 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~------------~~~~~~~~~-----------------~~~   82 (202)
                      ...+|+|+|.+|+|||||+++|...............+.            ......+..                 ...
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIERIGNEVKIGAMLGDVVSKADYERVRRFGIKAEAISTGKECHLDAHMIYHRLKKFSD  108 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHHHTTTSCEEEEECSCCCHHHHHHHHTTTCEEEECCCTTCSSCCHHHHHTTGGGGTT
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEecCCCCchhHHHHHhCCCcEEEecCCceeecccHHHHHHHHhcCC
Confidence            457899999999999999999987532111000000000            000011111                 012


Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHH
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDG  162 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  162 (202)
                      ..+.+|||+|......   .+....+.+++|+|+.....  ....+...   .   +.|+++|+||+|+.........+.
T Consensus       109 ~d~iiidt~G~~~~~~---~~~~~~~~~i~vvd~~~~~~--~~~~~~~~---~---~~~~iiv~NK~Dl~~~~~~~~~~~  177 (221)
T 2wsm_A          109 CDLLLIENVGNLICPV---DFDLGENYRVVMVSVTEGDD--VVEKHPEI---F---RVADLIVINKVALAEAVGADVEKM  177 (221)
T ss_dssp             CSEEEEEEEEBSSGGG---GCCCSCSEEEEEEEGGGCTT--HHHHCHHH---H---HTCSEEEEECGGGHHHHTCCHHHH
T ss_pred             CCEEEEeCCCCCCCCc---hhccccCcEEEEEeCCCcch--hhhhhhhh---h---hcCCEEEEecccCCcchhhHHHHH
Confidence            5788999998511111   11124688999999886532  11111111   1   467899999999854322345555


Q ss_pred             HHHHHHc--CCeEEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          163 IEYAEKN--GMFFIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       163 ~~~~~~~--~~~~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      ...+...  ..+++++|+++|.|+++++++|.+.+.+..
T Consensus       178 ~~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~~~  216 (221)
T 2wsm_A          178 KADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNVHS  216 (221)
T ss_dssp             HHHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC---
T ss_pred             HHHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHHH
Confidence            5555543  478999999999999999999999887654

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=99.64  E-value=7.2e-17  Score=126.45  Aligned_cols=102  Identities=15%  Similarity=0.128  Sum_probs=67.6

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHH
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDG  162 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  162 (202)
                      +.+.|+||||....   ....+..+|++|+|+|....+....+..        .....|+++|+||+|+....... ...
T Consensus       172 ~~~iiiDTpGi~~~---~~~~~~~aD~vl~V~d~~~~~~~~~l~~--------~~~~~p~ivVlNK~Dl~~~~~~~-~~~  239 (355)
T 3p32_A          172 FDVILIETVGVGQS---EVAVANMVDTFVLLTLARTGDQLQGIKK--------GVLELADIVVVNKADGEHHKEAR-LAA  239 (355)
T ss_dssp             CCEEEEEECSCSSH---HHHHHTTCSEEEEEEESSTTCTTTTCCT--------TSGGGCSEEEEECCCGGGHHHHH-HHH
T ss_pred             CCEEEEeCCCCCcH---HHHHHHhCCEEEEEECCCCCccHHHHHH--------hHhhcCCEEEEECCCCcChhHHH-HHH
Confidence            57999999994321   2223478999999999876643322211        11246899999999975422111 111


Q ss_pred             HHHHHH----------cCCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          163 IEYAEK----------NGMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       163 ~~~~~~----------~~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      ..+...          ++.+++.+||++|.|+++++++|.+.+.
T Consensus       240 ~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~  283 (355)
T 3p32_A          240 RELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQ  283 (355)
T ss_dssp             HHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHH
Confidence            112111          1578999999999999999999988764

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.63  E-value=3.9e-18  Score=125.41  Aligned_cols=155  Identities=16%  Similarity=0.178  Sum_probs=91.6

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEE------------EEEEEecCCc------------------
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFL------------SQTIALQDST------------------   81 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~------------------   81 (202)
                      ...+|+|+|.+|+|||||+++|....+......+...+..            ...+.+..+.                  
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~  116 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVIAKFDAERMEKHGAKVVPLNTGKECHLDAHLVGHALEDLNL  116 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTTCCEEEEEEETTTHHHHHHHHTTTCEEEEEECTTCSSCCHHHHHHHHTTSCG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEECCCCCCccHHHHHhcCCcEEEecCCceEeccHHHHHHHHHHHhc
Confidence            4689999999999999999999986544322222222211            1112221111                  


Q ss_pred             -EEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChH
Q 028884           82 -TVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQ  160 (202)
Q Consensus        82 -~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~  160 (202)
                       ...+.++|++|.-...   ..+-...+..+.++|.........  .+...   .   ..|.++|+||+|+........+
T Consensus       117 ~~~d~~~id~~g~i~~~---~s~~~~~~~~~~v~~~~~~~~~~~--~~~~~---~---~~~~iiv~NK~Dl~~~~~~~~~  185 (226)
T 2hf9_A          117 DEIDLLFIENVGNLICP---ADFDLGTHKRIVVISTTEGDDTIE--KHPGI---M---KTADLIVINKIDLADAVGADIK  185 (226)
T ss_dssp             GGCSEEEEECCSCSSGG---GGCCCSCSEEEEEEEGGGCTTTTT--TCHHH---H---TTCSEEEEECGGGHHHHTCCHH
T ss_pred             CCCCEEEEeCCCCccCc---chhhhccCcEEEEEecCcchhhHh--hhhhH---h---hcCCEEEEeccccCchhHHHHH
Confidence             0145666666621110   011123456667777532211100  00011   1   4678999999998654334555


Q ss_pred             HHHHHHHHc--CCeEEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          161 DGIEYAEKN--GMFFIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       161 ~~~~~~~~~--~~~~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      +...++...  +++++++||++|.|++++|++|.+.+..
T Consensus       186 ~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          186 KMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             HHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence            666666553  6789999999999999999999887653

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=99.61  E-value=7.5e-16  Score=132.36  Aligned_cols=118  Identities=17%  Similarity=0.144  Sum_probs=84.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCC----------------CCcc--ccceeEEEEEEEe-----------cCCc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDP----------------TSKV--TVGASFLSQTIAL-----------QDST   81 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~----------------~~~~--~~~~~~~~~~~~~-----------~~~~   81 (202)
                      .+..+|+|+|+.++|||||+++|+......                ....  ++........+..           .++.
T Consensus        17 ~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~   96 (842)
T 1n0u_A           17 TNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGN   96 (842)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSS
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccCC
Confidence            457899999999999999999998741100                0011  1111111112221           1334


Q ss_pred             EEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 028884           82 TVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH  152 (202)
Q Consensus        82 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~  152 (202)
                      .+.+.+|||||+.+|...+..+++.+|++|+|+|++++.+++....|....    ..++|+++|+||+|+.
T Consensus        97 ~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~----~~~~p~ilviNK~D~~  163 (842)
T 1n0u_A           97 SFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQAL----GERIKPVVVINKVDRA  163 (842)
T ss_dssp             EEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHH----HTTCEEEEEEECHHHH
T ss_pred             CceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHH----HcCCCeEEEEECCCcc
Confidence            589999999999999999999999999999999999987777665554433    2368999999999975

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=99.61  E-value=1.5e-14  Score=112.65  Aligned_cols=162  Identities=16%  Similarity=0.097  Sum_probs=96.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCc--------------EEEEEEEeCCChhhhh--
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDST--------------TVKFEIWDTAGQERYA--   97 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~i~D~~G~~~~~--   97 (202)
                      ++|+++|.+|+|||||+|+|.+........+..+.......+.+.+..              ...+.+||+||.....  
T Consensus         3 ~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a~~   82 (363)
T 1jal_A            3 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASK   82 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceEEEEecCCcccceeeeeecccceeeeEEEEEECCCCcccccc
Confidence            689999999999999999999876322222211211111122222210              1479999999976542  


Q ss_pred             --hccc---ccccCccEEEEEEeCCCh----------hHHHHHHHHHHH-------------------------------
Q 028884           98 --ALAP---LYYRGAAVAVVVYDITSP----------DSFNKAQYWVKE-------------------------------  131 (202)
Q Consensus        98 --~~~~---~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~-------------------------------  131 (202)
                        .+..   .+++.+|++++|+|+++.          +.+..+..+...                               
T Consensus        83 ~~gl~~~fl~~ir~ad~il~VvD~~~~~~v~~v~~~~dp~~d~~~i~~EL~~~d~~~~~k~~~~~~k~~k~g~~~~~~~~  162 (363)
T 1jal_A           83 GEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKIDPLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAKFEL  162 (363)
T ss_dssp             HGGGTCCHHHHHHTCSEEEEEEECSCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             cchHHHHHHHHHHhcCeEEEEEecCCCCceeeecCCcChHHHHHHHHHHHHhhhHHHHhhHHHHHHHHhhccchhHHHHH
Confidence              2322   347889999999999852          122222111110                               


Q ss_pred             ---------HHH-------------------c-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCC--
Q 028884          132 ---------LQK-------------------H-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT--  180 (202)
Q Consensus       132 ---------i~~-------------------~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~--  180 (202)
                               +..                   . ....+|+++++|+.|..-...........++...+.+++++||+.  
T Consensus       163 ~~l~~~~~~L~~~~~~~~~~~~~~e~~~l~~~~llt~KPvi~v~N~~e~~~~~n~~~~~v~~~~~~~~~~~i~~sA~~E~  242 (363)
T 1jal_A          163 SVMEKILPVLENAGMIRSVGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAIES  242 (363)
T ss_dssp             HHHHHHHHHHHTTCCGGGSCCCHHHHHHHGGGCCSTTSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHHHHH
T ss_pred             HHHHHHHHHHhcCCCccccCCCHHHHHHHHHhhcccCCcEEEEEecccccccccHHHHHHHHHHHHcCCCEEEechHHHH
Confidence                     110                   0 122499999999998542112234556677777888999999653  


Q ss_pred             --------------------CCCHHHHHHHHHHHc
Q 028884          181 --------------------ADNINQLFEEIAKRL  195 (202)
Q Consensus       181 --------------------~~~i~~~~~~l~~~i  195 (202)
                                          ..|++.+.+.+.+.+
T Consensus       243 el~~l~~~e~~~~l~~~g~~~~gl~~li~~~~~~L  277 (363)
T 1jal_A          243 EIAELDDEEKVEFLQDLGIEEPGLNRVIRAGYALL  277 (363)
T ss_dssp             HGGGSCSSTTHHHHTTSSCCSCTTHHHHHHHHHHT
T ss_pred             HHHhcCHHHHHHHHHHhCcccccHHHHHHHHHHHh
Confidence                                356777777766654

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.61  E-value=8.3e-16  Score=126.46  Aligned_cols=119  Identities=15%  Similarity=0.229  Sum_probs=80.1

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCC---CCCccccceeEEEEEEEecCC--------------------------
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFD---PTSKVTVGASFLSQTIALQDS--------------------------   80 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~--------------------------   80 (202)
                      ....++|+|+|.+|+|||||+|+|++..+.   ....++. ....  .+.....                          
T Consensus        62 ~~~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T-~~~~--~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~  138 (550)
T 2qpt_A           62 FDGKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTT-DCFV--AVMHGETEGTVPGNALVVDPEKPFRKLNPFGNT  138 (550)
T ss_dssp             TSSCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCC-CSEE--EEECCSSSEEECCC------------------C
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCcc-ceEE--EEEECCcccccCCceeeecCcccHHHHhhhccc
Confidence            456789999999999999999999998763   1112111 1110  0000000                          


Q ss_pred             ---cE----------EEEEEEeCCChhh-----------hhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcC
Q 028884           81 ---TT----------VKFEIWDTAGQER-----------YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHG  136 (202)
Q Consensus        81 ---~~----------~~~~i~D~~G~~~-----------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~  136 (202)
                         ..          ..+.+|||||...           +...+..++..+|++|+|+|+++.........|+..+..  
T Consensus       139 ~~~~~~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~--  216 (550)
T 2qpt_A          139 FLNRFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRG--  216 (550)
T ss_dssp             CCTTEEEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTT--
T ss_pred             ccccceEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHh--
Confidence               00          2588999999764           445566678889999999999875434455566655543  


Q ss_pred             CCCCeEEEEEeCCCCCCC
Q 028884          137 SPDIVMALVGNKADLHEK  154 (202)
Q Consensus       137 ~~~~p~ivv~nK~D~~~~  154 (202)
                       .+.|+++|+||+|+...
T Consensus       217 -~~~pvilVlNK~Dl~~~  233 (550)
T 2qpt_A          217 -HEDKIRVVLNKADMVET  233 (550)
T ss_dssp             -CGGGEEEEEECGGGSCH
T ss_pred             -cCCCEEEEEECCCccCH
Confidence             36789999999998653

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.58  E-value=4.6e-14  Score=119.52  Aligned_cols=119  Identities=17%  Similarity=0.117  Sum_probs=80.9

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhC--------CCC----------CCCccccceeEEEEEEEecC----CcEEEEEE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRG--------QFD----------PTSKVTVGASFLSQTIALQD----STTVKFEI   87 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~--------~~~----------~~~~~~~~~~~~~~~~~~~~----~~~~~~~i   87 (202)
                      .++.-||+|+|+.++|||||.++|+..        ...          ......++.......+.+.+    ...+.+++
T Consensus        10 ~~~IRNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNl   89 (709)
T 4fn5_A           10 INRYRNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNV   89 (709)
T ss_dssp             GGGEEEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEE
T ss_pred             hHHCeEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEE
Confidence            356789999999999999999999732        110          01111222222223333322    12479999


Q ss_pred             EeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 028884           88 WDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH  152 (202)
Q Consensus        88 ~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~  152 (202)
                      +||||+..|.......++.+|++|+|+|+..+-..+...-|... ...   ++|.++++||+|..
T Consensus        90 IDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a-~~~---~lp~i~~iNKiDr~  150 (709)
T 4fn5_A           90 IDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQA-NKY---GVPRIVYVNKMDRQ  150 (709)
T ss_dssp             ECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHH-HHH---TCCEEEEEECSSST
T ss_pred             EeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHH-HHc---CCCeEEEEcccccc
Confidence            99999999999999999999999999999987544443434333 333   68899999999974

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.56  E-value=9.8e-16  Score=128.18  Aligned_cols=160  Identities=14%  Similarity=0.128  Sum_probs=106.2

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC--CCC------C------C----CccccceeEEEEEEEecCCcEEEEEEEeCCChh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG--QFD------P------T----SKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE   94 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~--~~~------~------~----~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   94 (202)
                      ..||+|+|+.++|||||.++|+..  ...      .      .    ....++.......+.+.+   +.++++||||+.
T Consensus         2 IRNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~---~~iNlIDTPGH~   78 (638)
T 3j25_A            2 IINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWEN---TKVNIIDTPGHM   78 (638)
T ss_dssp             CCCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSS---CBCCCEECCCSS
T ss_pred             eeEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECC---EEEEEEECCCcH
Confidence            358999999999999999999742  110      0      0    001122222222233322   579999999999


Q ss_pred             hhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC-----------------
Q 028884           95 RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV-----------------  157 (202)
Q Consensus        95 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~-----------------  157 (202)
                      .|.......++.+|++|+|+|+..+-..+...-| ......   ++|.++++||+|....+..                 
T Consensus        79 DF~~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~-~~a~~~---~lp~i~~INKmDr~~a~~~~~~~~i~~~l~~~~~~~  154 (638)
T 3j25_A           79 DFLAEVYRSLSVLDGAILLISAKDGVQAQTRILF-HALRKM---GIPTIFFINKIDQNGIDLSTVYQDIKEKLSAEIVIK  154 (638)
T ss_dssp             STHHHHHHHHTTCSEEECCEESSCTTCSHHHHHH-HHHHHH---TCSCEECCEECCSSSCCSHHHHHHHHHTTCCCCCCC
T ss_pred             HHHHHHHHHHHHhCEEEEEEeCCCCCcHHHHHHH-HHHHHc---CCCeEEEEeccccccCCHHHHHHHHHHHhCCCcccc
Confidence            9999999999999999999999987433333333 334433   6789999999997532110                 


Q ss_pred             ---------------ChHHHH------------------------------HHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          158 ---------------PAQDGI------------------------------EYAEKNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       158 ---------------~~~~~~------------------------------~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                                     ..+...                              .+....-.|++..||+++.|++.+++.+.
T Consensus       155 ~~~~~~~~~~~~~~~~~~~~e~~~e~~d~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~Pv~~gSa~~~~Gv~~LLd~i~  234 (638)
T 3j25_A          155 QKVELYPNVCVTNFTESEQWDTVIEGNDDLLEKYMSGKSLEALELEQEESIRFQNCSLFPLYHGSAKSNIGIDNLIEVIT  234 (638)
T ss_dssp             CCCCSCGGGCCCCCCCHHHHHHHHHHHCHHHHHHHHHCCCCSHHHHHHHHHHHHHTSCCCCCCCCSTTCCSHHHHHHHHH
T ss_pred             ceeEeeccccccccchhhhhhhhhcccHHHHhhhccCCccchHHHHHHHhhhhcccccccccccccccCCCchhHhhhhh
Confidence                           000000                              00011124678889999999999999999


Q ss_pred             HHcCCCC
Q 028884          193 KRLPRPS  199 (202)
Q Consensus       193 ~~i~~~~  199 (202)
                      +.+..+.
T Consensus       235 ~~~p~p~  241 (638)
T 3j25_A          235 NKFYSST  241 (638)
T ss_dssp             HSCCCSG
T ss_pred             ccccCcc
Confidence            9887663

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.54  E-value=3.5e-14  Score=110.84  Aligned_cols=101  Identities=12%  Similarity=0.090  Sum_probs=60.6

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHH
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDG  162 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  162 (202)
                      +.+.++||+|....   .......+|++++|+|++.+.....+..   .+     ...|.++|+||+|+.+.... ....
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i-----l~~~~ivVlNK~Dl~~~~~~-~~~~  234 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKR---GI-----IEMADLVAVTKSDGDLIVPA-RRIQ  234 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC--------------------CCSCSEEEECCCSGGGHHHH-HHHH
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHH---HH-----HhcCCEEEEeeecCCCchhH-HHHH
Confidence            47899999996321   1223567999999999987643222211   11     24578999999997532110 0011


Q ss_pred             HHHHH----------HcCCeEEEeccCCCCCHHHHHHHHHHHc
Q 028884          163 IEYAE----------KNGMFFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       163 ~~~~~----------~~~~~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      ..+..          .+..+++.+|++++.|+++++++|.+.+
T Consensus       235 ~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~  277 (349)
T 2www_A          235 AEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQ  277 (349)
T ss_dssp             HHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHH
Confidence            11211          1245789999999999999999998765

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.54  E-value=1.6e-13  Score=107.51  Aligned_cols=156  Identities=10%  Similarity=0.062  Sum_probs=96.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhh-------hhccccc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY-------AALAPLY  103 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~  103 (202)
                      .-..+|+++|.||+|||||+|+|++........+..+.+.....+.+.+   ..++++|+||...-       .......
T Consensus        70 ~g~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~---~~i~l~D~pGl~~~a~~~~~~g~~~l~~  146 (376)
T 4a9a_A           70 TGVASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKG---AKIQMLDLPGIIDGAKDGRGRGKQVIAV  146 (376)
T ss_dssp             CSSEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETT---EEEEEEECGGGCCC-----CHHHHHHHH
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCC---cEEEEEeCCCccCCchhhhHHHHHHHHH
Confidence            3457999999999999999999998765444445555555555566554   67999999995321       1122335


Q ss_pred             ccCccEEEEEEeCCChhH-HHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC--------CCCCChHHHHHHHHHcCCeEE
Q 028884          104 YRGAAVAVVVYDITSPDS-FNKAQYWVKELQKHGSPDIVMALVGNKADLHE--------KREVPAQDGIEYAEKNGMFFI  174 (202)
Q Consensus       104 ~~~~d~~i~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~--------~~~~~~~~~~~~~~~~~~~~~  174 (202)
                      ++.+|++++|+|.++|.. .+.+...+..+.. .....|.++++||.|...        ......++...+.....+..-
T Consensus       147 i~~ad~il~vvD~~~p~~~~~~i~~EL~~~~~-~l~~k~~~i~~nK~d~~gi~i~~~~~~~~l~~eeik~il~~~~lt~k  225 (376)
T 4a9a_A          147 ARTCNLLFIILDVNKPLHHKQIIEKELEGVGI-RLNKTPPDILIKKKEKGGISITNTVPLTHLGNDEIRAVMSEYRINSA  225 (376)
T ss_dssp             HHHCSEEEEEEETTSHHHHHHHHHHHHHHTTE-EETCCCCCEEEEECSSSCEEEEESSCCSSCCHHHHHHHHHHTTCCSE
T ss_pred             HHhcCccccccccCccHHHHHHHHHHHHHhhH-hhccCChhhhhhHhhhhhhhhhcchhhhhccHHHHHHHHHHhcccCC
Confidence            678999999999999833 2233333332211 123567889999999632        123445555555555544322


Q ss_pred             EeccCCCCCHHHHHHH
Q 028884          175 ETSAKTADNINQLFEE  190 (202)
Q Consensus       175 ~~s~~~~~~i~~~~~~  190 (202)
                      ++-...+...+++.+.
T Consensus       226 pv~~~~nv~eddl~d~  241 (376)
T 4a9a_A          226 EIAFRCDATVDDLIDV  241 (376)
T ss_dssp             EEEECSCCCHHHHHHH
T ss_pred             CeeecccCCHHHHHHH
Confidence            3333334455555443

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=99.54  E-value=8.3e-15  Score=123.45  Aligned_cols=156  Identities=17%  Similarity=0.177  Sum_probs=96.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccce------------------------------------------
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGA------------------------------------------   68 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~------------------------------------------   68 (202)
                      -...+|+|+|.+++|||||+|+|++..+.+......+.                                          
T Consensus        49 i~lp~I~vvG~~saGKSSllnaL~g~~~LP~g~g~~Tr~Pl~l~l~~~~~~~~~~l~~~~~~~~~~~~v~~~I~~~~~~~  128 (772)
T 3zvr_A           49 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  128 (772)
T ss_dssp             GCCSEEEEEECTTTCHHHHHHHHHSSCCSCCSSSCSCSSCEEEEEEECSSCEEECSTTTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCCccCcCCccccccceEEEeecCCcchhheeccCCcccCCHHHHHHHHHHHHhhh
Confidence            45679999999999999999999997653322211110                                          


Q ss_pred             ---------eEEEEEEEecCCcEEEEEEEeCCChhh-------------hhhcccccc-cCccEEEEEEeCCChhHHHHH
Q 028884           69 ---------SFLSQTIALQDSTTVKFEIWDTAGQER-------------YAALAPLYY-RGAAVAVVVYDITSPDSFNKA  125 (202)
Q Consensus        69 ---------~~~~~~~~~~~~~~~~~~i~D~~G~~~-------------~~~~~~~~~-~~~d~~i~v~d~~~~~s~~~~  125 (202)
                               ......+..++.  ..+.++||||...             ...+...++ ..+|++++|+|++.+......
T Consensus       129 ~g~~~~is~~~i~l~I~~P~~--~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~  206 (772)
T 3zvr_A          129 TGTNKGISPVPINLRVYSPHV--LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA  206 (772)
T ss_dssp             HCSTTCCCSCCEEEEEEETTC--CSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHH
T ss_pred             cCCCCcccccceEEEEecCCC--CceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHH
Confidence                     000111111111  2578999999432             223333344 578999999999875332222


Q ss_pred             HHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH----cC-CeEEEeccCCCCCHHHHHHHHHH
Q 028884          126 QYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK----NG-MFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       126 ~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~----~~-~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      ..++..+.   ..+.|+++|+||+|+.+....... ... ...    .+ .+++.+||++|.|++++++.+.+
T Consensus       207 l~ll~~L~---~~g~pvIlVlNKiDlv~~~~~~~~-il~-~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~  274 (772)
T 3zvr_A          207 LKIAKEVD---PQGQRTIGVITKLDLMDEGTDARD-VLE-NKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  274 (772)
T ss_dssp             HHHHHHHC---TTCSSEEEEEECTTSSCTTCCSHH-HHT-TCSSCCSSCEEECCCCCCEESSSSEEHHHHHHH
T ss_pred             HHHHHHHH---hcCCCEEEEEeCcccCCcchhhHH-HHH-HHhhhhhccCCceEEecccccccchhHHHHHHH
Confidence            23333333   347899999999998765433221 111 111    12 24678999999999999998876

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=99.53  E-value=7.6e-14  Score=109.28  Aligned_cols=85  Identities=20%  Similarity=0.143  Sum_probs=53.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecC------------------CcEEEEEEEeCCChhh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQD------------------STTVKFEIWDTAGQER   95 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~------------------~~~~~~~i~D~~G~~~   95 (202)
                      ++|+++|.+|+|||||+|+|.+........+..+.........+.+                  .....+.+||+||...
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl~~   81 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGLVK   81 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSSCCGGGGSTTEEEEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeccceeeEecChHHHHHHHHHhcccccccccCCceEEEEECCCccc
Confidence            6899999999999999999998642211111111111111112111                  0124799999999765


Q ss_pred             hh----hc---ccccccCccEEEEEEeCCC
Q 028884           96 YA----AL---APLYYRGAAVAVVVYDITS  118 (202)
Q Consensus        96 ~~----~~---~~~~~~~~d~~i~v~d~~~  118 (202)
                      ..    .+   ...+++.+|++++|+|+++
T Consensus        82 ~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~  111 (368)
T 2dby_A           82 GAHKGEGLGNQFLAHIREVAAIAHVLRCFP  111 (368)
T ss_dssp             CCCSSSCTTHHHHHHHHTCSEEEEEEECCC
T ss_pred             cccccchHHHHHHHHHHhCCEEEEEEECCC
Confidence            32    11   2234788999999999985

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=99.52  E-value=5.5e-15  Score=115.14  Aligned_cols=103  Identities=15%  Similarity=0.046  Sum_probs=63.7

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCCh--H
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPA--Q  160 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~--~  160 (202)
                      +.+.++||||.......   ....+|++++|+|++.+..+..+..   ..     .+.|.++|+||+|+........  .
T Consensus       149 ~~i~liDTpG~~~~~~~---~~~~aD~vl~Vvd~~~~~~~~~l~~---~~-----~~~p~ivv~NK~Dl~~~~~~~~~~~  217 (341)
T 2p67_A          149 YDVVIVETVGVGQSETE---VARMVDCFISLQIAGGGDDLQGIKK---GL-----MEVADLIVINKDDGDNHTNVAIARH  217 (341)
T ss_dssp             CSEEEEEEECCTTHHHH---HHTTCSEEEEEECC------CCCCH---HH-----HHHCSEEEECCCCTTCHHHHHHHHH
T ss_pred             CCEEEEeCCCccchHHH---HHHhCCEEEEEEeCCccHHHHHHHH---hh-----hcccCEEEEECCCCCChHHHHHHHH
Confidence            57999999996543322   3578999999999986543221111   01     1457899999999764311110  1


Q ss_pred             HHHHHHHHc-------CCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          161 DGIEYAEKN-------GMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       161 ~~~~~~~~~-------~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      +........       ..+++++||++|.|+++++++|.+.+.
T Consensus       218 ~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          218 MYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            111111111       457899999999999999999988653

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=99.51  E-value=7.6e-14  Score=104.68  Aligned_cols=109  Identities=15%  Similarity=0.069  Sum_probs=67.4

Q ss_pred             EEEEEEeCCChhhhhhccc------ccccCccEEEEEEeCCCh---hHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           83 VKFEIWDTAGQERYAALAP------LYYRGAAVAVVVYDITSP---DSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~------~~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      +.+.+|||||.........      ..+.. +++++++|....   ..+.....+....  ....+.|+++|+||+|+..
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~--~~~~~~p~~iv~NK~D~~~  185 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLI--DLRLGATTIPALNKVDLLS  185 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHH--HHHHTSCEEEEECCGGGCC
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHH--hcccCCCeEEEEecccccc
Confidence            4799999999876543321      23455 888889987643   2222222111111  1123678999999999765


Q ss_pred             CCCCChHHHHH----------------------------HHHHc--CCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          154 KREVPAQDGIE----------------------------YAEKN--GMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       154 ~~~~~~~~~~~----------------------------~~~~~--~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      ....  .+...                            ++...  ..+++++|++++.|+++++++|.+.+.
T Consensus       186 ~~~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~  256 (262)
T 1yrb_A          186 EEEK--ERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYC  256 (262)
T ss_dssp             HHHH--HHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cccH--HHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhc
Confidence            3211  11111                            01232  247899999999999999999988764

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=99.45  E-value=1.8e-13  Score=104.86  Aligned_cols=98  Identities=19%  Similarity=0.186  Sum_probs=79.8

Q ss_pred             hhhhhhcccccccCccEEEEEEeCCChh-HHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC-hHHHHHHHHHcC
Q 028884           93 QERYAALAPLYYRGAAVAVVVYDITSPD-SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP-AQDGIEYAEKNG  170 (202)
Q Consensus        93 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~-~~~~~~~~~~~~  170 (202)
                      ++++..+.+.+++++|++++|+|++++. ++..+..|+..+..   .++|+++|+||+|+.+...+. .++...++...+
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~---~~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~~~g  142 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY---FKVEPVIVFNKIDLLNEEEKKELERWISIYRDAG  142 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHHHHHHHHHHHHHHHHTT
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh---CCCCEEEEEEcccCCCccccHHHHHHHHHHHHCC
Confidence            5667788888999999999999999885 88888999887765   478999999999986543222 344556666778


Q ss_pred             CeEEEeccCCCCCHHHHHHHHHH
Q 028884          171 MFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       171 ~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      .+++++||+++.|++++++.+..
T Consensus       143 ~~~~~~SA~~g~gi~~L~~~l~G  165 (302)
T 2yv5_A          143 YDVLKVSAKTGEGIDELVDYLEG  165 (302)
T ss_dssp             CEEEECCTTTCTTHHHHHHHTTT
T ss_pred             CeEEEEECCCCCCHHHHHhhccC
Confidence            89999999999999999988654

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.44  E-value=1.4e-13  Score=106.97  Aligned_cols=102  Identities=13%  Similarity=0.091  Sum_probs=61.5

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHH
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDG  162 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  162 (202)
                      ..+.++||+|...-..   .....+|.+++++|...++..+.+...   +.     ..+.++++||+|+...........
T Consensus       148 ~~~iliDT~Gi~~~~~---~v~~~~d~vl~v~d~~~~~~~~~i~~~---i~-----~~~~ivvlNK~Dl~~~~~~s~~~~  216 (337)
T 2qm8_A          148 FDVILVETVGVGQSET---AVADLTDFFLVLMLPGAGDELQGIKKG---IF-----ELADMIAVNKADDGDGERRASAAA  216 (337)
T ss_dssp             CCEEEEEECSSSSCHH---HHHTTSSEEEEEECSCC------CCTT---HH-----HHCSEEEEECCSTTCCHHHHHHHH
T ss_pred             CCEEEEECCCCCcchh---hHHhhCCEEEEEEcCCCcccHHHHHHH---Hh-----ccccEEEEEchhccCchhHHHHHH
Confidence            5799999999643211   224678999999998755322211111   11     234577789999754222111112


Q ss_pred             HHHHHH----------cCCeEEEeccCCCCCHHHHHHHHHHHc
Q 028884          163 IEYAEK----------NGMFFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       163 ~~~~~~----------~~~~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      ..+...          +..+++.+|++++.|++++++.|.+.+
T Consensus       217 ~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~  259 (337)
T 2qm8_A          217 SEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHR  259 (337)
T ss_dssp             HHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHH
Confidence            222221          145689999999999999999998764

>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=99.35  E-value=9.5e-13  Score=94.06  Aligned_cols=106  Identities=8%  Similarity=-0.049  Sum_probs=69.9

Q ss_pred             CChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHH---HHHcC--CCCCeEEEEEeCC-CCCCCCCCChHHHHH
Q 028884           91 AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE---LQKHG--SPDIVMALVGNKA-DLHEKREVPAQDGIE  164 (202)
Q Consensus        91 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~---i~~~~--~~~~p~ivv~nK~-D~~~~~~~~~~~~~~  164 (202)
                      +|+..++.+|+.|+.++|++|||+|.+|.+-++ ....+..   +....  ..++|++|++||. |+..  .....++.+
T Consensus       110 GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~--Ams~~EI~e  186 (227)
T 3l82_B          110 GSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVK--RMPCFYLAH  186 (227)
T ss_dssp             -------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSC--BCCHHHHHH
T ss_pred             CcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccC--CCCHHHHHH
Confidence            378889999999999999999999999874333 3333322   22221  2688999999985 6643  334444333


Q ss_pred             HHHH----cCCeEEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          165 YAEK----NGMFFIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       165 ~~~~----~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      ....    ..+.+..|||++|+|+.+.++||.+.+..++
T Consensus       187 ~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~~k~  225 (227)
T 3l82_B          187 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESKR  225 (227)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTTTC-
T ss_pred             HcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHHhhc
Confidence            2221    3456899999999999999999999998765

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=99.24  E-value=1.5e-10  Score=91.26  Aligned_cols=88  Identities=16%  Similarity=0.171  Sum_probs=57.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCC-CCCCccccceeEEEEEEEecCC-----------c---EEEEEEEeCCChhh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQF-DPTSKVTVGASFLSQTIALQDS-----------T---TVKFEIWDTAGQER   95 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~-----------~---~~~~~i~D~~G~~~   95 (202)
                      ....+|.++|.+|+|||||+|.|.+... .....+..+.......+.+.+.           .   ...+.+||+||...
T Consensus        18 ~~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~~   97 (392)
T 1ni3_A           18 GNNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTK   97 (392)
T ss_dssp             SSCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEecccccc
Confidence            4468999999999999999999999665 2333333333332333333321           0   13589999999532


Q ss_pred             -------hhhcccccccCccEEEEEEeCCC
Q 028884           96 -------YAALAPLYYRGAAVAVVVYDITS  118 (202)
Q Consensus        96 -------~~~~~~~~~~~~d~~i~v~d~~~  118 (202)
                             +.......++.+|++++|+|..+
T Consensus        98 ~~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           98 GASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             CCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence                   22223345678999999999863

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.24  E-value=5e-12  Score=99.47  Aligned_cols=89  Identities=13%  Similarity=0.045  Sum_probs=50.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCc--------------EEEEEEEeCCChhhh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDST--------------TVKFEIWDTAGQERY   96 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~i~D~~G~~~~   96 (202)
                      ...++|+++|.+|+|||||+|+|.+........+..+.......+.+.+..              ...+.+||+||....
T Consensus        20 ~~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~   99 (396)
T 2ohf_A           20 GTSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKG   99 (396)
T ss_dssp             SSCCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC----
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcccc
Confidence            456899999999999999999999876533333333333333333332210              135999999997764


Q ss_pred             hh-------cccccccCccEEEEEEeCCCh
Q 028884           97 AA-------LAPLYYRGAAVAVVVYDITSP  119 (202)
Q Consensus        97 ~~-------~~~~~~~~~d~~i~v~d~~~~  119 (202)
                      ..       .+..+++.+|++++|+|+++.
T Consensus       100 as~~~glg~~~l~~ir~aD~Il~VvD~~~~  129 (396)
T 2ohf_A          100 AHNGQGLGNAFLSHISACDGIFHLTRAFED  129 (396)
T ss_dssp             -------CCHHHHHHHTSSSEEEEEEC---
T ss_pred             cchhhHHHHHHHHHHHhcCeEEEEEecCCC
Confidence            33       345567899999999998753

>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=99.21  E-value=1.8e-11  Score=91.63  Aligned_cols=108  Identities=8%  Similarity=-0.040  Sum_probs=73.4

Q ss_pred             CCChhhhhhcccccccCccEEEEEEeCCChhHHH---HHHHHHHHHHHc-CCCCCeEEEEEeC-CCCCCCCCCChHHHHH
Q 028884           90 TAGQERYAALAPLYYRGAAVAVVVYDITSPDSFN---KAQYWVKELQKH-GSPDIVMALVGNK-ADLHEKREVPAQDGIE  164 (202)
Q Consensus        90 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~---~~~~~~~~i~~~-~~~~~p~ivv~nK-~D~~~~~~~~~~~~~~  164 (202)
                      .+|+..++.+|+.|+.++|++|||+|.+|.+.++   ++.+....+... ...++|++|++|| .|+..  .....++.+
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~--Ams~~EI~e  271 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVK--RMPCFYLAH  271 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSC--BCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccC--CCCHHHHHH
Confidence            3577888999999999999999999999875433   222221222221 1358999999996 57643  333444333


Q ss_pred             HHHH----cCCeEEEeccCCCCCHHHHHHHHHHHcCCCC
Q 028884          165 YAEK----NGMFFIETSAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       165 ~~~~----~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      ....    ....+..|||.+|+|+.+.++||.+.+..++
T Consensus       272 ~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~~k~  310 (312)
T 3l2o_B          272 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESKR  310 (312)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSCC--
T ss_pred             HcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHHhhc
Confidence            2221    3455899999999999999999999998765

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.99  E-value=8.5e-10  Score=86.61  Aligned_cols=98  Identities=23%  Similarity=0.246  Sum_probs=73.2

Q ss_pred             ChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHH----HHH
Q 028884           92 GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIE----YAE  167 (202)
Q Consensus        92 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~----~~~  167 (202)
                      ..+.|...+..+.+.+|++++|+|++++.     ..|...+.+.. .++|+++|+||+|+.+.. ...+...+    ++.
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~-~~~p~ilV~NK~DL~~~~-~~~~~~~~~l~~~~~  127 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFV-GNNKVLLVGNKADLIPKS-VKHDKVKHWMRYSAK  127 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHS-SSSCEEEEEECGGGSCTT-SCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHh-CCCcEEEEEEChhcCCcc-cCHHHHHHHHHHHHH
Confidence            35778888888999999999999999863     34555555542 378999999999987543 22233333    355


Q ss_pred             HcCC---eEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          168 KNGM---FFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       168 ~~~~---~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      ..+.   .++.+||++|.|++++++.|.+...
T Consensus       128 ~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~~~  159 (368)
T 3h2y_A          128 QLGLKPEDVFLISAAKGQGIAELADAIEYYRG  159 (368)
T ss_dssp             HTTCCCSEEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             HcCCCcccEEEEeCCCCcCHHHHHhhhhhhcc
Confidence            6676   7999999999999999999987553

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.96  E-value=3.4e-10  Score=91.92  Aligned_cols=153  Identities=14%  Similarity=0.119  Sum_probs=83.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHH------hCCCCC----CCcccc-----------ceeEEEEEEE------------e
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFV------RGQFDP----TSKVTV-----------GASFLSQTIA------------L   77 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~------~~~~~~----~~~~~~-----------~~~~~~~~~~------------~   77 (202)
                      .....|+|+|.+|+||||++++|.      +.+...    .+.+..           ..........            .
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~  178 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEK  178 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHH
Confidence            345789999999999999999998      322100    000000           0111010000            0


Q ss_pred             cCCcEEEEEEEeCCChhhhh-hcc---ccc--ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeE-EEEEeCCC
Q 028884           78 QDSTTVKFEIWDTAGQERYA-ALA---PLY--YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVM-ALVGNKAD  150 (202)
Q Consensus        78 ~~~~~~~~~i~D~~G~~~~~-~~~---~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~-ivv~nK~D  150 (202)
                      .....+.+.|+||||..... .++   ...  +-.+|.+++|+|+........   ....+..    .+|+ ++|+||.|
T Consensus       179 ~~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~~---~a~~~~~----~~~i~gvVlNK~D  251 (504)
T 2j37_W          179 FKNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEA---QAKAFKD----KVDVASVIVTKLD  251 (504)
T ss_dssp             HHHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHHH---HHHHHHH----HHCCCCEEEECTT
T ss_pred             HHHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHHH---HHHHHHh----hcCceEEEEeCCc
Confidence            00012579999999964211 111   001  126899999999987632211   1222222    1564 88899999


Q ss_pred             CCCCCCCChHHHHHHHHHcCCeE------------------EEeccCCCCC-HHHHHHHHHHH
Q 028884          151 LHEKREVPAQDGIEYAEKNGMFF------------------IETSAKTADN-INQLFEEIAKR  194 (202)
Q Consensus       151 ~~~~~~~~~~~~~~~~~~~~~~~------------------~~~s~~~~~~-i~~~~~~l~~~  194 (202)
                      ......    .........+.++                  +.+|+..|.| +.++++++.+.
T Consensus       252 ~~~~~g----~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          252 GHAKGG----GALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             SCCCCT----HHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             cccchH----HHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            753321    1222333444443                  2368889988 99999998866

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.91  E-value=1.4e-10  Score=91.17  Aligned_cols=140  Identities=16%  Similarity=0.113  Sum_probs=78.8

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC-----CCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh--------c
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG-----QFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA--------L   99 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~   99 (202)
                      ..+|+++|.+|+|||||+|+|++.     ....... ..++......+.+..    .+.++||||......        .
T Consensus       162 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~-~~gtT~~~~~~~~~~----~~~liDtPG~~~~~~~~~~l~~~~  236 (369)
T 3ec1_A          162 GGDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSY-FPGTTLDMIEIPLES----GATLYDTPGIINHHQMAHFVDARD  236 (369)
T ss_dssp             TSCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEE-CTTSSCEEEEEECST----TCEEEECCSCCCCSSGGGGSCTTT
T ss_pred             cCcEEEEcCCCCchHHHHHHHHhhccCCccceeecC-CCCeEEeeEEEEeCC----CeEEEeCCCcCcHHHHHHHHhHHH
Confidence            357999999999999999999985     1111111 111222222233322    278999999532111        1


Q ss_pred             ccccc--cCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEec
Q 028884          100 APLYY--RGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       100 ~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s  177 (202)
                      ...++  +..+.++++++......+..+..    +......+.|+++++||.|....... ......+.+..+..+...+
T Consensus       237 l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~----l~~l~~~~~~~~~v~~k~d~~~~~~~-~~~~~~~~~~~g~~l~p~~  311 (369)
T 3ec1_A          237 LKIITPKREIHPRVYQLNEGQTLFFGGLAR----LDYIKGGRRSFVCYMANELTVHRTKL-EKADSLYANQLGELLSPPS  311 (369)
T ss_dssp             HHHHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEEG-GGHHHHHHHHBTTTBCSSC
T ss_pred             HHHHhcccccCceEEEEcCCceEEECCEEE----EEEccCCCceEEEEecCCcccccccH-HHHHHHHHHhcCCccCCCC
Confidence            11111  56789999999853311111110    12222457899999999997654332 3334445556666555555


Q ss_pred             cCCCC
Q 028884          178 AKTAD  182 (202)
Q Consensus       178 ~~~~~  182 (202)
                      +.+..
T Consensus       312 ~~~~~  316 (369)
T 3ec1_A          312 KRYAA  316 (369)
T ss_dssp             GGGTT
T ss_pred             chhhh
Confidence            54433

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=98.90  E-value=2.5e-08  Score=79.12  Aligned_cols=159  Identities=14%  Similarity=0.140  Sum_probs=83.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccce-eEEEEEEEecCCcEEEEEEEeCCChhhhh-----hcccccccCc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGA-SFLSQTIALQDSTTVKFEIWDTAGQERYA-----ALAPLYYRGA  107 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-----~~~~~~~~~~  107 (202)
                      ..++|+|++|+|||||+|.+.+-............ ......+.........+.++|++|.....     .+...-+...
T Consensus        70 ~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q~~~~~~ltv~D~~g~~~~~~~~~~~L~~~~L~~~  149 (413)
T 1tq4_A           70 LNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEY  149 (413)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSSCTTEEEEECCCGGGSSCCHHHHHHHTTGGGC
T ss_pred             eEEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEEeccccccCCeeehHhhcccchHHHHHHHHHHcCCCcc
Confidence            37999999999999999999984321111111100 00000011111111257889999853211     1111123334


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCC-------CCCCCChHHH----HHHH----HHc---
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH-------EKREVPAQDG----IEYA----EKN---  169 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~-------~~~~~~~~~~----~~~~----~~~---  169 (202)
                      +..++ ++...+. -.. ......+..   .+.|+++|.||.|+.       .-......+.    ..++    ...   
T Consensus       150 ~~~~~-lS~G~~~-kqr-v~la~aL~~---~~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~l~~~g~~  223 (413)
T 1tq4_A          150 DFFII-ISATRFK-KND-IDIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIA  223 (413)
T ss_dssp             SEEEE-EESSCCC-HHH-HHHHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTTCS
T ss_pred             CCeEE-eCCCCcc-HHH-HHHHHHHHh---cCCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            55555 7776321 111 112222332   257999999999963       1111222222    2232    122   


Q ss_pred             CCeEEEecc--CCCCCHHHHHHHHHHHcCCC
Q 028884          170 GMFFIETSA--KTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       170 ~~~~~~~s~--~~~~~i~~~~~~l~~~i~~~  198 (202)
                      ...++.+|+  ..+.|++++.+.+.+.+.+-
T Consensus       224 ~~~iiliSsh~l~~~~~e~L~d~I~~~Lpeg  254 (413)
T 1tq4_A          224 EPPIFLLSNKNVCHYDFPVLMDKLISDLPIY  254 (413)
T ss_dssp             SCCEEECCTTCTTSTTHHHHHHHHHHHSCGG
T ss_pred             CCcEEEEecCcCCccCHHHHHHHHHHhCccc
Confidence            235788898  66678999999999887653

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.89  E-value=2.8e-09  Score=84.63  Aligned_cols=145  Identities=17%  Similarity=0.232  Sum_probs=70.3

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCcc--ccceeEEEEEEEecC-CcEEEEEEEeCCChhh-----------
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV--TVGASFLSQTIALQD-STTVKFEIWDTAGQER-----------   95 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~-----------   95 (202)
                      ....++++|+|++|+|||||++.|.+..+......  ..........+.... +-...+.++|++|...           
T Consensus        39 ~Gei~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~D~~~~g~~~~~~~~~~~i  118 (427)
T 2qag_B           39 QGFCFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGFGDQINKEDSYKPI  118 (427)
T ss_dssp             -CCEEEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEEEEECCCC-CCHHHHSHHH
T ss_pred             CCCeeEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchhhhhhhhhccccchhhhHH
Confidence            33456799999999999999999998653221111  111111111111112 2224688999987421           


Q ss_pred             -------hhhcccc---------cccCc--c-EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC
Q 028884           96 -------YAALAPL---------YYRGA--A-VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE  156 (202)
Q Consensus        96 -------~~~~~~~---------~~~~~--d-~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~  156 (202)
                             +......         ....+  | +++++.|...+.+..+    ++.+.... .++|+|+|.||+|.....+
T Consensus       119 ~~~i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~D----ieilk~L~-~~~~vI~Vi~KtD~Lt~~E  193 (427)
T 2qag_B          119 VEFIDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLD----LVTMKKLD-SKVNIIPIIAKADAISKSE  193 (427)
T ss_dssp             HHHHHHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHH----HHHHHHTC-SCSEEEEEESCGGGSCHHH
T ss_pred             HHHHHHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHH----HHHHHHHh-hCCCEEEEEcchhccchHH
Confidence                   1111111         11222  3 3556667665433222    12233332 5789999999999765332


Q ss_pred             CCh--HHHHHHHHHcCCeEEEeccC
Q 028884          157 VPA--QDGIEYAEKNGMFFIETSAK  179 (202)
Q Consensus       157 ~~~--~~~~~~~~~~~~~~~~~s~~  179 (202)
                      ...  ..+.......++.++.+|.-
T Consensus       194 ~~~l~~~I~~~L~~~gi~I~~is~~  218 (427)
T 2qag_B          194 LTKFKIKITSELVSNGVQIYQFPTD  218 (427)
T ss_dssp             HHHHHHHHHHHHBTTBCCCCCCC--
T ss_pred             HHHHHHHHHHHHHHcCCcEEecCCC
Confidence            111  11111122346677777743

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.84  E-value=1.1e-10  Score=91.62  Aligned_cols=136  Identities=13%  Similarity=0.130  Sum_probs=73.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCC---C--CccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhc--------
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDP---T--SKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAAL--------   99 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~---~--~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------   99 (202)
                      ..+|+++|.+|+|||||+|+|++.....   .  .....++......+.+..    .+.++||||......+        
T Consensus       160 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~----~~~liDtPG~~~~~~~~~~l~~~~  235 (368)
T 3h2y_A          160 GKDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPLDE----ESSLYDTPGIINHHQMAHYVGKQS  235 (368)
T ss_dssp             TSCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEESSS----SCEEEECCCBCCTTSGGGGSCHHH
T ss_pred             cceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEEecC----CeEEEeCCCcCcHHHHHHHhhHHH
Confidence            3589999999999999999999853211   0  111111222222233222    2789999995322111        


Q ss_pred             ccc--cccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEec
Q 028884          100 APL--YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       100 ~~~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s  177 (202)
                      ...  ..+..+..+++++......+..+..    +......+.|+++++||.|....... ......+.+..+..++..+
T Consensus       236 l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~----~d~l~~~~~~~~~v~nk~d~~~~~~~-~~~~~~~~~~~g~~l~p~~  310 (368)
T 3h2y_A          236 LKLITPTKEIKPMVFQLNEEQTLFFSGLAR----FDYVSGGRRAFTCHFSNRLTIHRTKL-EKADELYKNHAGDLLSPPT  310 (368)
T ss_dssp             HHHHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEEH-HHHHHHHHHHBTTTBCSSC
T ss_pred             HHHhccccccCceEEEEcCCCEEEEcceEE----EEEecCCCceEEEEecCccccccccH-HHHHHHHHHHhCCccCCCc
Confidence            111  1355788899998743211111100    11222457899999999997654322 2233344455555444443

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.82  E-value=3.7e-08  Score=74.09  Aligned_cols=117  Identities=18%  Similarity=0.195  Sum_probs=62.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccc-----cceeEEEEEEEe-cCCc--EEEEEEEeCCChhh---------
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVT-----VGASFLSQTIAL-QDST--TVKFEIWDTAGQER---------   95 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~-----~~~~~~~~~~~~-~~~~--~~~~~i~D~~G~~~---------   95 (202)
                      .++++|+|+.|+|||||++.|.+..........     .........+.+ ....  ...+.++|++|...         
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~~~~~~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~~~   81 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPGFGDQINNENCWE   81 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHHHC------------CCCCCSCCEEEESCC----CCEEEEECCCC--CCSBCTTCSH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCcceeeeeeEEEeecCCCcCCceEEechhhhhhcccHHHHH
Confidence            589999999999999999999984322111000     000000011111 1111  13678999988311         


Q ss_pred             ---------hhh----------cccccccCccEEEEEEeCC-ChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884           96 ---------YAA----------LAPLYYRGAAVAVVVYDIT-SPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus        96 ---------~~~----------~~~~~~~~~d~~i~v~d~~-~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                               +..          ..+..+..+++.++++|.. .+-.... ...+..+.   .. .++++|++|.|....
T Consensus        82 ~i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD-~~~l~~L~---~~-~~vI~Vi~K~D~lt~  155 (270)
T 3sop_A           82 PIEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLD-LEFMKHLS---KV-VNIIPVIAKADTMTL  155 (270)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHH-HHHHHHHH---TT-SEEEEEETTGGGSCH
T ss_pred             HHHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHH-HHHHHHHH---hc-CcEEEEEeccccCCH
Confidence                     000          0122233468888899865 3322122 23333333   22 889999999997653

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.82  E-value=2.7e-09  Score=83.76  Aligned_cols=99  Identities=21%  Similarity=0.247  Sum_probs=71.5

Q ss_pred             ChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHH----HHH
Q 028884           92 GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIE----YAE  167 (202)
Q Consensus        92 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~----~~~  167 (202)
                      .++.|......+.+.++++++|+|++++.+     .|...+.+. ..++|+++|+||+|+.+... ..+....    ++.
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~-l~~~piilV~NK~DLl~~~~-~~~~~~~~l~~~~~  129 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRF-AADNPILLVGNKADLLPRSV-KYPKLLRWMRRMAE  129 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHH-CTTSCEEEEEECGGGSCTTC-CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHH-hCCCCEEEEEEChhcCCCcc-CHHHHHHHHHHHHH
Confidence            367888888888888999999999999753     233333333 23789999999999875432 2233333    345


Q ss_pred             HcCC---eEEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          168 KNGM---FFIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       168 ~~~~---~~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      ..+.   .++.+||++|.|++++++.+.+....
T Consensus       130 ~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~~~  162 (369)
T 3ec1_A          130 ELGLCPVDVCLVSAAKGIGMAKVMEAINRYREG  162 (369)
T ss_dssp             TTTCCCSEEEECBTTTTBTHHHHHHHHHHHHTT
T ss_pred             HcCCCcccEEEEECCCCCCHHHHHHHHHhhccc
Confidence            5665   68999999999999999999876543

>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=98.76  E-value=5.6e-09  Score=79.03  Aligned_cols=100  Identities=16%  Similarity=0.075  Sum_probs=67.8

Q ss_pred             EEeCCChh-hhhhcccccccCccEEEEEEeCCChhHHH--HHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHH
Q 028884           87 IWDTAGQE-RYAALAPLYYRGAAVAVVVYDITSPDSFN--KAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGI  163 (202)
Q Consensus        87 i~D~~G~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~  163 (202)
                      +-..||+. .........+..+|+++.|+|+.++.+..  .+.+|+        .++|.++|+||+|+.+..  ..+...
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l--------~~kp~ilVlNK~DL~~~~--~~~~~~   72 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL--------KNKPRIMLLNKADKADAA--VTQQWK   72 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC--------SSSCEEEEEECGGGSCHH--HHHHHH
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH--------CCCCEEEEEECcccCCHH--HHHHHH
Confidence            34578875 34455566788899999999999986553  334432        478999999999987521  122233


Q ss_pred             HHHHHcCCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          164 EYAEKNGMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       164 ~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      .+....+.+++.+|++++.|+.++++.+.+.+.
T Consensus        73 ~~~~~~g~~~i~iSA~~~~gi~~L~~~i~~~l~  105 (282)
T 1puj_A           73 EHFENQGIRSLSINSVNGQGLNQIVPASKEILQ  105 (282)
T ss_dssp             HHHHTTTCCEEECCTTTCTTGGGHHHHHHHHHH
T ss_pred             HHHHhcCCcEEEEECCCcccHHHHHHHHHHHHH
Confidence            444455778999999999999999988776653

>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=98.49  E-value=1.8e-07  Score=70.74  Aligned_cols=59  Identities=22%  Similarity=0.373  Sum_probs=35.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE   94 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   94 (202)
                      ...++|+++|.+|+|||||+|+|.+.......... +.......+.. +.   .+.++||||..
T Consensus       118 ~~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~~~-g~T~~~~~~~~-~~---~~~l~DtpG~~  176 (282)
T 1puj_A          118 PRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRP-GITTSQQWVKV-GK---ELELLDTPGIL  176 (282)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CCEEE-TT---TEEEEECCCCC
T ss_pred             CCCceEEEEecCCCchHHHHHHHhcCceeecCCCC-CeeeeeEEEEe-CC---CEEEEECcCcC
Confidence            45689999999999999999999986643332211 11111112222 21   48899999953

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=98.46  E-value=2.9e-07  Score=73.52  Aligned_cols=86  Identities=15%  Similarity=0.100  Sum_probs=50.3

Q ss_pred             EEEEEEeCCChhhh-----hhccc-ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC
Q 028884           83 VKFEIWDTAGQERY-----AALAP-LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE  156 (202)
Q Consensus        83 ~~~~i~D~~G~~~~-----~~~~~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~  156 (202)
                      +.+.++||+|....     ..+.. .....+|.+++|+|+.........   ...+...   -.+..||+||.|....  
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            57999999994321     11110 112247899999999875332222   1223322   1236788999996532  


Q ss_pred             CChHHHHHHHHHcCCeEEEecc
Q 028884          157 VPAQDGIEYAEKNGMFFIETSA  178 (202)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~~~s~  178 (202)
                        ...+.......+.|+.+++.
T Consensus       255 --gG~~ls~~~~~g~PI~fig~  274 (443)
T 3dm5_A          255 --GGGALSAVAATGAPIKFIGT  274 (443)
T ss_dssp             --HHHHHHHHHTTCCCEEEEEC
T ss_pred             --ccHHHHHHHHHCCCEEEEEc
Confidence              23345555567888877765

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.40  E-value=1.3e-07  Score=70.83  Aligned_cols=56  Identities=21%  Similarity=0.280  Sum_probs=34.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE   94 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   94 (202)
                      ++++++|.+|+|||||+|+|.+........ ..+.......+.. +   ..+.+|||||..
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~~~~-~~g~T~~~~~~~~-~---~~~~l~DtpG~~  155 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASSVGA-QPGITKGIQWFSL-E---NGVKILDTPGIL  155 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-----------CCSCEEEC-T---TSCEEESSCEEC
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccccCC-CCCCccceEEEEe-C---CCEEEEECCCcc
Confidence            799999999999999999999866532221 1121111112222 1   158899999964

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=98.39  E-value=3.4e-07  Score=73.24  Aligned_cols=83  Identities=16%  Similarity=0.085  Sum_probs=47.5

Q ss_pred             EEEEEEeCCChhhh-----hhcc-cccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCC-e-EEEEEeCCCCCCC
Q 028884           83 VKFEIWDTAGQERY-----AALA-PLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDI-V-MALVGNKADLHEK  154 (202)
Q Consensus        83 ~~~~i~D~~G~~~~-----~~~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-p-~ivv~nK~D~~~~  154 (202)
                      +.+.++||||....     ..+. ...+..+|.+++|+|+..+..   .......+.    ... | ..+|+||.|....
T Consensus       181 ~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~---~~~~~~~~~----~~~~~i~gvVlnK~D~~~~  253 (432)
T 2v3c_C          181 ADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQ---AGIQAKAFK----EAVGEIGSIIVTKLDGSAK  253 (432)
T ss_dssp             CSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGG---HHHHHHHHH----TTSCSCEEEEEECSSSCST
T ss_pred             CCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHH---HHHHHHHHh----hcccCCeEEEEeCCCCccc
Confidence            57899999995421     1111 112235899999999876532   111222222    234 5 7889999996432


Q ss_pred             CCCChHHHHHHHHHcCCeEEEe
Q 028884          155 REVPAQDGIEYAEKNGMFFIET  176 (202)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~~~  176 (202)
                          ...........+.++..+
T Consensus       254 ----~g~~l~~~~~~~~pi~~i  271 (432)
T 2v3c_C          254 ----GGGALSAVAETKAPIKFI  271 (432)
T ss_dssp             ----THHHHHHHHHSSCCEEEE
T ss_pred             ----hHHHHHHHHHHCCCEEEe
Confidence                123344556666665554

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=98.32  E-value=1.1e-06  Score=72.67  Aligned_cols=66  Identities=12%  Similarity=0.054  Sum_probs=39.7

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCC-CCCccccceeEEEEEE--EecCCcEEEEEEEeCCChhh
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFD-PTSKVTVGASFLSQTI--ALQDSTTVKFEIWDTAGQER   95 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~D~~G~~~   95 (202)
                      ..+.++|+|+|.+|+|||||+|+|++.... .....+.........+  .........+.++||||...
T Consensus        35 ~~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~~  103 (592)
T 1f5n_A           35 TQPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGD  103 (592)
T ss_dssp             CSBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCC
T ss_pred             cCCCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccccCCCceEEEecCCCcCc
Confidence            356789999999999999999999987532 1111111111111111  11111224789999999643

>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=98.32  E-value=1.3e-07  Score=72.10  Aligned_cols=91  Identities=21%  Similarity=0.177  Sum_probs=62.9

Q ss_pred             hhcccccccCccEEEEEEeCCChh-HHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC--CChHHHHHHHHHcCCeE
Q 028884           97 AALAPLYYRGAAVAVVVYDITSPD-SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE--VPAQDGIEYAEKNGMFF  173 (202)
Q Consensus        97 ~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~  173 (202)
                      ..+.+..+.++|.+++|+|+.+|. +...+..++....   ..++|.+||+||+|+.+...  .............+.++
T Consensus        77 ~~l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~---~~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v  153 (307)
T 1t9h_A           77 NELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVE---ANDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDV  153 (307)
T ss_dssp             CEETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHH---TTTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCE
T ss_pred             hhhhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHH---HCCCCEEEEEECCccCchhhhHHHHHHHHHHHHhCCCeE
Confidence            345556788999999999999774 3344455544333   34788999999999876432  01233444555568889


Q ss_pred             EEeccCCCCCHHHHHHH
Q 028884          174 IETSAKTADNINQLFEE  190 (202)
Q Consensus       174 ~~~s~~~~~~i~~~~~~  190 (202)
                      +.+|+.++.|++++++.
T Consensus       154 ~~~sa~~~~g~~~L~~~  170 (307)
T 1t9h_A          154 YLTSSKDQDSLADIIPH  170 (307)
T ss_dssp             EECCHHHHTTCTTTGGG
T ss_pred             EEEecCCCCCHHHHHhh
Confidence            99999999888776543

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.27  E-value=1.9e-07  Score=69.81  Aligned_cols=93  Identities=16%  Similarity=0.096  Sum_probs=60.3

Q ss_pred             CCChhhh-hhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH
Q 028884           90 TAGQERY-AALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK  168 (202)
Q Consensus        90 ~~G~~~~-~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~  168 (202)
                      .||+... .......+..+|+++.|+|+.+|.+.....     +. ..  ++|.++|+||+|+.+..  ..+....+...
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~-----l~-ll--~k~~iivlNK~DL~~~~--~~~~~~~~~~~   73 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYG-----VD-FS--RKETIILLNKVDIADEK--TTKKWVEFFKK   73 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTT-----SC-CT--TSEEEEEEECGGGSCHH--HHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChH-----HH-hc--CCCcEEEEECccCCCHH--HHHHHHHHHHH
Confidence            3565432 234455678899999999999885543210     11 11  78999999999987531  12233444455


Q ss_pred             cCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          169 NGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       169 ~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      .+.++ .+|++++.|++++++.+..
T Consensus        74 ~g~~v-~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           74 QGKRV-ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             TTCCE-EECCTTSCHHHHHHHHCCC
T ss_pred             cCCeE-EEECCCCcCHHHHHHHHHH
Confidence            67788 9999999999998887654

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=98.19  E-value=5.5e-07  Score=71.80  Aligned_cols=86  Identities=12%  Similarity=0.084  Sum_probs=51.0

Q ss_pred             EEEEEEeCCChhh-------hhhccc-ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884           83 VKFEIWDTAGQER-------YAALAP-LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus        83 ~~~~i~D~~G~~~-------~~~~~~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                      +.+.++||+|...       ...+.. ...-..|.+++|+|+........+   ...+...   -.+..||+||.|... 
T Consensus       180 ~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~~---a~~f~~~---~~~~gVIlTKlD~~a-  252 (433)
T 3kl4_A          180 MDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDL---ASRFHQA---SPIGSVIITKMDGTA-  252 (433)
T ss_dssp             CSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHHH---HHHHHHH---CSSEEEEEECGGGCS-
T ss_pred             CCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHHH---HHHHhcc---cCCcEEEEecccccc-
Confidence            5788999999532       111110 011136899999999875332222   2223322   134688899999642 


Q ss_pred             CCCChHHHHHHHHHcCCeEEEecc
Q 028884          155 REVPAQDGIEYAEKNGMFFIETSA  178 (202)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~~~~s~  178 (202)
                         ....+.......+.|+.+++.
T Consensus       253 ---~~G~als~~~~~g~Pi~fig~  273 (433)
T 3kl4_A          253 ---KGGGALSAVVATGATIKFIGT  273 (433)
T ss_dssp             ---CHHHHHHHHHHHTCEEEEEEC
T ss_pred             ---cchHHHHHHHHHCCCEEEEEC
Confidence               234455666677899877775

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=98.15  E-value=4.9e-06  Score=69.42  Aligned_cols=23  Identities=22%  Similarity=0.408  Sum_probs=21.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .|+|+|+.|||||||++.+.+-.
T Consensus        47 ~iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           47 AIAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             CEECCCCTTSCHHHHHHHHHSCC
T ss_pred             eEEEECCCCChHHHHHHHHhCCC
Confidence            49999999999999999999853

>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=98.04  E-value=1.1e-05  Score=62.74  Aligned_cols=87  Identities=18%  Similarity=0.178  Sum_probs=57.9

Q ss_pred             ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC-ChHHHHHHHHHcCCeEEEeccCC
Q 028884          102 LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV-PAQDGIEYAEKNGMFFIETSAKT  180 (202)
Q Consensus       102 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~-~~~~~~~~~~~~~~~~~~~s~~~  180 (202)
                      ..+.++|.+++|.+.....+...+..++......   ++|.+||+||+|+.+.... ..+.........+.+++.+|+.+
T Consensus       126 ~i~anvD~v~iv~a~~P~~~~~~i~r~L~~a~~~---~~~~iivlNK~DL~~~~~~~~~~~~~~~y~~~G~~v~~~Sa~~  202 (358)
T 2rcn_A          126 PIAANIDQIVIVSAILPELSLNIIDRYLVGCETL---QVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRVLMVSSHT  202 (358)
T ss_dssp             EEEECCCEEEEEEESTTTCCHHHHHHHHHHHHHH---TCEEEEEEECGGGCCHHHHHHHHHHHHHHHTTTCCEEECBTTT
T ss_pred             HHHhcCCEEEEEEeCCCCCCHHHHHHHHHHHHhc---CCCEEEEEECccCCCchhHHHHHHHHHHHHhCCCcEEEEecCC
Confidence            3467899999887654223344556665544433   6778999999998754210 01223344445688899999999


Q ss_pred             CCCHHHHHHHH
Q 028884          181 ADNINQLFEEI  191 (202)
Q Consensus       181 ~~~i~~~~~~l  191 (202)
                      +.|++++...+
T Consensus       203 ~~gl~~L~~~~  213 (358)
T 2rcn_A          203 QDGLKPLEEAL  213 (358)
T ss_dssp             TBTHHHHHHHH
T ss_pred             CcCHHHHHHhc
Confidence            99999877654

>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=97.96  E-value=4e-06  Score=63.83  Aligned_cols=89  Identities=17%  Similarity=0.110  Sum_probs=52.7

Q ss_pred             EEEEEEeCCChhh--hh-hccc-----ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCC
Q 028884           83 VKFEIWDTAGQER--YA-ALAP-----LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHE  153 (202)
Q Consensus        83 ~~~~i~D~~G~~~--~~-~~~~-----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~  153 (202)
                      +.+.++||||...  .. .+..     .....+|.+++|+|+.....   .......+..    ..+ ..+|+||.|...
T Consensus       181 ~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~~---~~~~~~~~~~----~~~i~gvVlnk~D~~~  253 (297)
T 1j8m_F          181 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQK---AYDLASKFNQ----ASKIGTIIITKMDGTA  253 (297)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGG---HHHHHHHHHH----TCTTEEEEEECGGGCT
T ss_pred             CCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchHH---HHHHHHHHHh----hCCCCEEEEeCCCCCc
Confidence            5799999999655  21 1111     12335899999999875421   1122222322    244 678899999542


Q ss_pred             CCCCChHHHHHHHHHcCCeEEEeccCCCCCH
Q 028884          154 KREVPAQDGIEYAEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i  184 (202)
                          ............+.++..++  .|+++
T Consensus       254 ----~~g~~~~~~~~~~~pi~~i~--~Ge~v  278 (297)
T 1j8m_F          254 ----KGGGALSAVAATGATIKFIG--TGEKI  278 (297)
T ss_dssp             ----THHHHHHHHHTTTCCEEEEE--CSSST
T ss_pred             ----chHHHHHHHHHHCcCEEEEe--CCCCh
Confidence                23345566677788877766  34444

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=97.82  E-value=2.5e-05  Score=62.58  Aligned_cols=26  Identities=23%  Similarity=0.178  Sum_probs=22.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .+..-|.|+|++++|||+|+|+|++.
T Consensus        65 ~~v~vVsV~G~~~~GKStLLN~llg~   90 (447)
T 3q5d_A           65 KEVVAVSVAGAFRKGKSFLMDFMLRY   90 (447)
T ss_dssp             SBEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CceEEEEEECCCCCcHHHHHHHHhhh
Confidence            45666779999999999999999863

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=97.81  E-value=2.1e-06  Score=69.45  Aligned_cols=102  Identities=15%  Similarity=0.092  Sum_probs=58.1

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh--hhhcc--------
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER--YAALA--------  100 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--~~~~~--------  100 (202)
                      .....|+++|.+|+||||+.++|........ .++.............+.. ....+||..|.+.  .+..+        
T Consensus        37 ~~~~~IvlvGlpGsGKSTia~~La~~l~~~~-~~t~~~~~d~~r~~~~g~~-~~~~ifd~~g~~~~r~re~~~~~~l~~~  114 (469)
T 1bif_A           37 NCPTLIVMVGLPARGKTYISKKLTRYLNFIG-VPTREFNVGQYRRDMVKTY-KSFEFFLPDNEEGLKIRKQCALAALNDV  114 (469)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHHHTT-CCEEEEEHHHHHHHHHCSC-CCGGGGCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHhccC-CCceEEecchhhhhhccCC-CcccccCCCCHHHHHHHHHHHHHHHHHH
Confidence            3467899999999999999999876421111 1111000000000001111 2346789988732  23332        


Q ss_pred             cccccCccEEEEEEeCCChhHHHHHHHHHHHHHHc
Q 028884          101 PLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH  135 (202)
Q Consensus       101 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~  135 (202)
                      ..++...++.++|+|.++. +......|+..+...
T Consensus       115 ~~~l~~~~G~~vV~D~tn~-~~~~R~~~~~~~~~~  148 (469)
T 1bif_A          115 RKFLSEEGGHVAVFDATNT-TRERRAMIFNFGEQN  148 (469)
T ss_dssp             HHHHHTTCCSEEEEESCCC-SHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCEEEEeCCCC-CHHHHHHHHHHHHhc
Confidence            4455567888999999987 355556676666554

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=97.43  E-value=9.1e-05  Score=51.95  Aligned_cols=23  Identities=35%  Similarity=0.772  Sum_probs=20.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .+++++|++|+|||||++.+.+.
T Consensus         1 ~~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            1 MKIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999988874

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=97.33  E-value=0.00024  Score=55.26  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=21.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQF   58 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~   58 (202)
                      .++|+|++|+|||||+|.|.+...
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             EEEEECCCCccHHHHHHHHhcccc
Confidence            689999999999999999998553

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.32  E-value=0.00013  Score=51.05  Aligned_cols=22  Identities=41%  Similarity=0.641  Sum_probs=20.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -++|+|++|||||||++.|.+.
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5889999999999999999874

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.32  E-value=0.00058  Score=54.59  Aligned_cols=83  Identities=14%  Similarity=0.079  Sum_probs=44.5

Q ss_pred             EEEEEEeCCChhhhh-hccc-----ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCCCC
Q 028884           83 VKFEIWDTAGQERYA-ALAP-----LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEKR  155 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~-~~~~-----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~~~  155 (202)
                      +.+.|+||||..... .+..     ..+..+|.+++|+|+........   ....+..    ..+ .-+|+||.|.....
T Consensus       184 ~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~~~~---~~~~f~~----~l~i~gvVlnK~D~~~~~  256 (433)
T 2xxa_A          184 YDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAAN---TAKAFNE----ALPLTGVVLTKVDGDARG  256 (433)
T ss_dssp             CSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTTHHH---HHHHHHH----HSCCCCEEEECTTSSSCC
T ss_pred             CCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHHHHH---HHHHHhc----cCCCeEEEEecCCCCccH
Confidence            579999999953321 1111     11335789999999876532211   1222222    123 34689999964321


Q ss_pred             CCChHHHHHHHHHcCCeEEEe
Q 028884          156 EVPAQDGIEYAEKNGMFFIET  176 (202)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~~~  176 (202)
                          ..........+.++..+
T Consensus       257 ----g~~l~i~~~~~~Pi~~i  273 (433)
T 2xxa_A          257 ----GAALSIRHITGKPIKFL  273 (433)
T ss_dssp             ----THHHHHHHHHCCCEEEE
T ss_pred             ----HHHHHHHHHHCCCeEEE
Confidence                23334555556654443

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.25  E-value=0.00017  Score=51.35  Aligned_cols=22  Identities=36%  Similarity=0.600  Sum_probs=20.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -.++|+|++|+|||||++.+.+
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4689999999999999999986

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.16  E-value=0.00024  Score=50.53  Aligned_cols=22  Identities=27%  Similarity=0.543  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -++++|++|||||||++.+.+.
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            5889999999999999999874

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.15  E-value=0.00024  Score=49.97  Aligned_cols=23  Identities=35%  Similarity=0.387  Sum_probs=20.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -.|+++|++|||||||++.|.+.
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            46899999999999999999874

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=97.12  E-value=8.2e-05  Score=56.73  Aligned_cols=24  Identities=33%  Similarity=0.429  Sum_probs=20.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      -.++|+|++|+|||||+|.|.+..
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             CEEEEECCCCCCHHHHHHHhcccc
Confidence            478999999999999999998753

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.10  E-value=0.00022  Score=49.50  Aligned_cols=20  Identities=40%  Similarity=0.634  Sum_probs=17.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHH
Q 028884           35 KLVLLGDSGVGKSCIVLRFV   54 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~   54 (202)
                      -++++|++|||||||++.+.
T Consensus        11 i~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHc
Confidence            57899999999999999643

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=97.09  E-value=0.00031  Score=50.34  Aligned_cols=24  Identities=38%  Similarity=0.369  Sum_probs=20.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      --++|+|+.|||||||++.+.+-.
T Consensus        21 ei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           21 RVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            358899999999999999998743

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=97.08  E-value=0.00032  Score=50.83  Aligned_cols=25  Identities=24%  Similarity=0.432  Sum_probs=21.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .--++|+|+.|+|||||++.+.+..
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccC
Confidence            3468899999999999999998743

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.07  E-value=0.00037  Score=49.95  Aligned_cols=25  Identities=28%  Similarity=0.306  Sum_probs=21.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+...|+|+|++|||||||++.+.+
T Consensus        20 ~~g~~v~I~G~sGsGKSTl~~~l~~   44 (208)
T 3c8u_A           20 PGRQLVALSGAPGSGKSTLSNPLAA   44 (208)
T ss_dssp             CSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3467899999999999999998876

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.06  E-value=0.00033  Score=50.66  Aligned_cols=25  Identities=32%  Similarity=0.529  Sum_probs=21.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .-.++|+|+.|+|||||++.+.+..
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4468999999999999999998743

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=97.04  E-value=0.0005  Score=48.93  Aligned_cols=24  Identities=46%  Similarity=0.657  Sum_probs=21.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .--|+|+|++|+|||||++.|...
T Consensus        19 g~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           19 RKTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECcCCCCHHHHHHHHHhh
Confidence            446889999999999999999864

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.03  E-value=0.00038  Score=49.91  Aligned_cols=25  Identities=32%  Similarity=0.469  Sum_probs=21.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .--|+|+|++|+|||||++.|....
T Consensus         8 g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            8 GLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            3458899999999999999998753

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.00  E-value=0.00069  Score=49.00  Aligned_cols=21  Identities=29%  Similarity=0.545  Sum_probs=18.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -|+|+|+|||||+|....|..
T Consensus        31 iI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           31 VIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             EEEEECCTTCCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            466899999999999988865

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.99  E-value=0.00046  Score=48.67  Aligned_cols=21  Identities=33%  Similarity=0.619  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      |+|+|++|+||+||+++|...
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999999864

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.96  E-value=0.0005  Score=47.51  Aligned_cols=23  Identities=30%  Similarity=0.476  Sum_probs=20.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ..|+++|++||||||+++.|.+.
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            36999999999999999988763

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.95  E-value=0.00052  Score=47.09  Aligned_cols=25  Identities=28%  Similarity=0.517  Sum_probs=21.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .-.++++|+.|+|||||++.+.+..
T Consensus        33 Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           33 AIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhC
Confidence            3468899999999999999998754

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.95  E-value=0.0005  Score=49.06  Aligned_cols=24  Identities=33%  Similarity=0.530  Sum_probs=20.8

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ..-|+|+|++|||||||++.|...
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            346899999999999999999763

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.94  E-value=0.0007  Score=48.10  Aligned_cols=25  Identities=24%  Similarity=0.570  Sum_probs=21.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .....|+|.|.+||||||+.+.|..
T Consensus        18 ~~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           18 GSHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999998865

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.93  E-value=0.0006  Score=48.78  Aligned_cols=24  Identities=17%  Similarity=0.314  Sum_probs=20.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +...|+|+|+.|||||||++.+.+
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999998876

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.93  E-value=0.00053  Score=48.78  Aligned_cols=25  Identities=36%  Similarity=0.530  Sum_probs=21.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      ...|+|+|++||||||+++.|.+..
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3468999999999999999998754

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.92  E-value=0.00052  Score=47.25  Aligned_cols=20  Identities=25%  Similarity=0.336  Sum_probs=18.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHH
Q 028884           34 VKLVLLGDSGVGKSCIVLRF   53 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l   53 (202)
                      .-|+|.|++||||||+.+.|
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            36899999999999999999

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.92  E-value=0.00055  Score=48.11  Aligned_cols=21  Identities=33%  Similarity=0.548  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -++++|++|+|||||++.+.+
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            478999999999999999975

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.91  E-value=0.00058  Score=47.39  Aligned_cols=22  Identities=27%  Similarity=0.443  Sum_probs=20.0

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..|+|.|.+||||||+.+.|..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4589999999999999999986

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=96.91  E-value=0.00049  Score=50.44  Aligned_cols=23  Identities=26%  Similarity=0.239  Sum_probs=20.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      =.++++|+.|||||||++.+.+-
T Consensus        32 e~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           32 EFVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            35889999999999999988873

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.89  E-value=0.00059  Score=46.97  Aligned_cols=21  Identities=19%  Similarity=0.279  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .|+|.|.+||||||+.+.|..
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSK   23 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999999875

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.89  E-value=0.00061  Score=48.45  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=20.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-.|+|+|++|||||||++.|.+
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999998875

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.86  E-value=0.00065  Score=48.04  Aligned_cols=22  Identities=27%  Similarity=0.498  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|++|+|||||++.+.+.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhh
Confidence            5889999999999999988763

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.86  E-value=0.00064  Score=50.64  Aligned_cols=24  Identities=21%  Similarity=0.361  Sum_probs=21.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +.=.++|+|++|||||||++.+.+
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHH
Confidence            344689999999999999998886

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.85  E-value=0.00066  Score=48.75  Aligned_cols=22  Identities=27%  Similarity=0.549  Sum_probs=19.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ++|+|.|.+||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            1 MNIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999998854

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.85  E-value=0.0007  Score=49.78  Aligned_cols=22  Identities=32%  Similarity=0.610  Sum_probs=20.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHH
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFV   54 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~   54 (202)
                      ...|+|+|++|||||||++.+.
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3579999999999999999988

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.84  E-value=0.00069  Score=49.82  Aligned_cols=22  Identities=36%  Similarity=0.415  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999874

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.84  E-value=0.00056  Score=49.72  Aligned_cols=22  Identities=27%  Similarity=0.350  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998873

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.83  E-value=0.0007  Score=48.63  Aligned_cols=22  Identities=41%  Similarity=0.569  Sum_probs=19.6

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ++|+|.|.+||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            1 MNLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999998864

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.82  E-value=0.0011  Score=45.93  Aligned_cols=22  Identities=36%  Similarity=0.492  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -.|+++|++||||||+++.|.+
T Consensus         9 ~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            9 HIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999998865

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.80  E-value=0.001  Score=46.57  Aligned_cols=25  Identities=16%  Similarity=0.397  Sum_probs=21.5

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ....|+++|.+||||||+.+.|...
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3467999999999999999988764

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.79  E-value=0.00088  Score=48.05  Aligned_cols=22  Identities=36%  Similarity=0.625  Sum_probs=19.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+|+++|+|||||+|...+|..
T Consensus         1 M~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            1 MILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999988865

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=96.78  E-value=0.00073  Score=48.79  Aligned_cols=22  Identities=18%  Similarity=0.356  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998874

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.78  E-value=0.00082  Score=51.14  Aligned_cols=24  Identities=21%  Similarity=0.384  Sum_probs=20.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +.=.++|+|++|+|||||++.|.+
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhh
Confidence            344789999999999999998886

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.78  E-value=0.00087  Score=46.73  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=20.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-++|+|.+|+|||||++++...
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHh
Confidence            45789999999999999999874

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.78  E-value=0.00082  Score=47.78  Aligned_cols=22  Identities=32%  Similarity=0.442  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..|+|+|.+||||||+++.|..
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998865

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=96.78  E-value=0.00075  Score=47.05  Aligned_cols=24  Identities=25%  Similarity=0.534  Sum_probs=20.8

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-.++++|++|+|||||++.+.+.
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKA   61 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            456899999999999999988763

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.77  E-value=0.00078  Score=49.41  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6789999999999999999874

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=96.77  E-value=0.0025  Score=45.36  Aligned_cols=21  Identities=29%  Similarity=0.627  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+++.|++|+|||+|++.+..
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~   60 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALAR   60 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            499999999999999998876

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.77  E-value=0.00098  Score=47.33  Aligned_cols=23  Identities=35%  Similarity=0.559  Sum_probs=20.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-.|+++|++||||||+.+.|..
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            45799999999999999998875

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.77  E-value=0.00072  Score=50.36  Aligned_cols=22  Identities=27%  Similarity=0.330  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999998874

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.76  E-value=0.00075  Score=50.64  Aligned_cols=22  Identities=36%  Similarity=0.514  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|||||||++.+.+-
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999998874

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.76  E-value=0.0009  Score=47.57  Aligned_cols=21  Identities=33%  Similarity=0.561  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +|+|+|.+||||||+.+.|.+
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            689999999999999999876

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.74  E-value=0.0011  Score=46.26  Aligned_cols=23  Identities=26%  Similarity=0.510  Sum_probs=20.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|++.|.+||||||+.+.|..
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998864

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.74  E-value=0.0043  Score=47.88  Aligned_cols=22  Identities=27%  Similarity=0.570  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ++++.|++|+||||+++.+.+.
T Consensus        38 ~~ll~Gp~G~GKTtl~~~la~~   59 (354)
T 1sxj_E           38 HLLLYGPNGTGKKTRCMALLES   59 (354)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3999999999999999988773

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=96.74  E-value=0.00088  Score=49.31  Aligned_cols=23  Identities=35%  Similarity=0.333  Sum_probs=20.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      =.++++|+.|+|||||++.+.+-
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           29 SIIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            46889999999999999998874

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.73  E-value=0.0012  Score=48.54  Aligned_cols=24  Identities=25%  Similarity=0.450  Sum_probs=21.5

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +.++|+|.|++||||||+.+.|..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999998864

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.73  E-value=0.00098  Score=46.23  Aligned_cols=23  Identities=35%  Similarity=0.333  Sum_probs=20.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ..|++.|.+||||||+.+.|...
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            35899999999999999998863

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.73  E-value=0.00082  Score=49.01  Aligned_cols=22  Identities=23%  Similarity=0.543  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999998874

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=96.73  E-value=0.0008  Score=49.97  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999874

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.72  E-value=0.0011  Score=47.00  Aligned_cols=21  Identities=33%  Similarity=0.629  Sum_probs=19.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .|+|.|.+||||||+++.|..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            589999999999999998876

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=96.72  E-value=0.00094  Score=49.37  Aligned_cols=22  Identities=27%  Similarity=0.373  Sum_probs=20.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999984

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=96.72  E-value=0.0012  Score=46.35  Aligned_cols=23  Identities=13%  Similarity=0.345  Sum_probs=20.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|+|.|.+||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998865

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=96.72  E-value=0.00081  Score=50.21  Aligned_cols=22  Identities=23%  Similarity=0.430  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            5789999999999999999874

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=96.71  E-value=0.00084  Score=50.03  Aligned_cols=22  Identities=32%  Similarity=0.378  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Confidence            5789999999999999998874

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.71  E-value=0.0017  Score=46.07  Aligned_cols=23  Identities=26%  Similarity=0.488  Sum_probs=20.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|+|.|.+||||||+.+.|..
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999998864

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.71  E-value=0.00085  Score=49.30  Aligned_cols=22  Identities=23%  Similarity=0.386  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999998874

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=96.71  E-value=0.00093  Score=49.33  Aligned_cols=22  Identities=32%  Similarity=0.388  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999998874

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.71  E-value=0.0011  Score=46.40  Aligned_cols=21  Identities=29%  Similarity=0.430  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .|+|.|.+||||||+++.|..
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998865

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.70  E-value=0.0016  Score=49.76  Aligned_cols=25  Identities=20%  Similarity=0.199  Sum_probs=22.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ....-|+|+|++|||||||++.+.+
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHh
Confidence            4567889999999999999998876

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.69  E-value=0.0011  Score=47.83  Aligned_cols=22  Identities=23%  Similarity=0.377  Sum_probs=19.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..|+++|++||||||+++.|.+
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998865

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=96.69  E-value=0.0009  Score=49.46  Aligned_cols=22  Identities=36%  Similarity=0.546  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            5789999999999999998874

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.69  E-value=0.0012  Score=47.61  Aligned_cols=23  Identities=26%  Similarity=0.557  Sum_probs=20.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|+|.|.+||||||+.+.|..
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998865

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.69  E-value=0.00091  Score=49.66  Aligned_cols=22  Identities=23%  Similarity=0.300  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999998874

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=96.69  E-value=0.001  Score=49.67  Aligned_cols=22  Identities=23%  Similarity=0.403  Sum_probs=20.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999984

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.67  E-value=0.00098  Score=48.14  Aligned_cols=23  Identities=17%  Similarity=0.248  Sum_probs=20.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      =-++|+|++|+|||||++.+.+.
T Consensus        26 ~~~~l~G~nGsGKSTll~~l~g~   48 (231)
T 4a74_A           26 AITEVFGEFGSGKTQLAHTLAVM   48 (231)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999999999873

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.67  E-value=0.00072  Score=48.59  Aligned_cols=22  Identities=23%  Similarity=0.330  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999999874

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.66  E-value=0.0011  Score=47.58  Aligned_cols=22  Identities=23%  Similarity=0.422  Sum_probs=19.6

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ++|+|.|.+||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            1 MRIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999998865

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.66  E-value=0.001  Score=49.44  Aligned_cols=23  Identities=35%  Similarity=0.440  Sum_probs=20.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      =.++|+|+.|+|||||++.+.+-
T Consensus        47 e~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           47 TTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            36889999999999999999874

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=96.66  E-value=0.00088  Score=50.92  Aligned_cols=24  Identities=33%  Similarity=0.369  Sum_probs=21.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      -.++++|++|+|||||+|.+.+..
T Consensus       170 eiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          170 KISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             CeEEEECCCCCcHHHHHHHhcccc
Confidence            357899999999999999998754

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.65  E-value=0.0013  Score=46.75  Aligned_cols=22  Identities=32%  Similarity=0.379  Sum_probs=20.0

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +.|+++|.+||||||+.+.|.+
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999976

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.64  E-value=0.0013  Score=45.99  Aligned_cols=22  Identities=23%  Similarity=0.252  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..|+|.|.+||||||+++.|..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5699999999999999998865

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.64  E-value=0.0015  Score=46.32  Aligned_cols=24  Identities=25%  Similarity=0.278  Sum_probs=20.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +.-.|+|+|++|||||||++.|.+
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~   47 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQ   47 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346789999999999999988865

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.63  E-value=0.001  Score=49.83  Aligned_cols=22  Identities=27%  Similarity=0.350  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++|+|+.|+|||||++.+.+-
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999998874

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.63  E-value=0.0022  Score=43.01  Aligned_cols=23  Identities=17%  Similarity=0.299  Sum_probs=19.8

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|++.|++|+|||++.+.+..
T Consensus        27 ~~~vll~G~~GtGKt~lA~~i~~   49 (143)
T 3co5_A           27 TSPVFLTGEAGSPFETVARYFHK   49 (143)
T ss_dssp             SSCEEEEEETTCCHHHHHGGGCC
T ss_pred             CCcEEEECCCCccHHHHHHHHHH
Confidence            35699999999999999987765

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=96.63  E-value=0.0014  Score=47.23  Aligned_cols=21  Identities=29%  Similarity=0.534  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .++|.|++|+|||+|++.+..
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~   67 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAK   67 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998875

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.63  E-value=0.0015  Score=48.03  Aligned_cols=25  Identities=16%  Similarity=0.230  Sum_probs=21.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .....|.|+|+.|||||||++.|.+
T Consensus        23 ~~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           23 MRPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             CCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4456799999999999999998876

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.63  E-value=0.0011  Score=49.76  Aligned_cols=22  Identities=27%  Similarity=0.380  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            5789999999999999998874

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.62  E-value=0.0015  Score=46.46  Aligned_cols=23  Identities=26%  Similarity=0.264  Sum_probs=20.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|+|.|.+||||||+.+.|..
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            35799999999999999999875

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.62  E-value=0.0015  Score=45.78  Aligned_cols=23  Identities=30%  Similarity=0.534  Sum_probs=20.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|+|.|.+||||||+.+.|..
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999988864

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.62  E-value=0.0007  Score=49.27  Aligned_cols=24  Identities=33%  Similarity=0.519  Sum_probs=15.8

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHH-hC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFV-RG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~-~~   56 (202)
                      .--++|+|++|||||||++.|. +.
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC--
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcC
Confidence            3468899999999999999998 53

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.61  E-value=0.0013  Score=45.93  Aligned_cols=22  Identities=23%  Similarity=0.495  Sum_probs=19.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..|+++|.+||||||+.+.|..
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998865

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.61  E-value=0.0017  Score=46.33  Aligned_cols=24  Identities=13%  Similarity=0.228  Sum_probs=21.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ...|+|+|.+|+|||||++.|.+.
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            467999999999999999999874

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=96.61  E-value=0.0015  Score=45.48  Aligned_cols=23  Identities=26%  Similarity=0.459  Sum_probs=20.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|++.|.+|+||||+.+.|..
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHH
Confidence            45789999999999999998874

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.61  E-value=0.0015  Score=47.56  Aligned_cols=23  Identities=35%  Similarity=0.601  Sum_probs=20.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|+|.|.+||||||+.+.|..
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998865

>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=96.60  E-value=0.0012  Score=50.21  Aligned_cols=23  Identities=48%  Similarity=0.743  Sum_probs=20.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      -.++++|++|+|||||+|.+. ..
T Consensus       166 ~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          166 FICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             cEEEEECCCCCCHHHHHHHHH-Hh
Confidence            467899999999999999998 54

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.60  E-value=0.0011  Score=49.10  Aligned_cols=22  Identities=32%  Similarity=0.471  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999998874

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.60  E-value=0.00065  Score=47.25  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++|+|++|||||||++.+.+-
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999873

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.59  E-value=0.0016  Score=46.02  Aligned_cols=25  Identities=20%  Similarity=0.254  Sum_probs=22.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +...|+|.|.+||||||+.+.|...
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            4578999999999999999998764

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.59  E-value=0.0012  Score=51.35  Aligned_cols=21  Identities=24%  Similarity=0.461  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .|+|+|++|||||||++.+.+
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g  145 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLD  145 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            799999999999999999876

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.58  E-value=0.0011  Score=49.38  Aligned_cols=22  Identities=27%  Similarity=0.401  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            5789999999999999998874

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.57  E-value=0.0014  Score=47.26  Aligned_cols=23  Identities=26%  Similarity=0.458  Sum_probs=20.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|+|.|.+||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998864

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.55  E-value=0.0015  Score=45.28  Aligned_cols=21  Identities=29%  Similarity=0.548  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +|+|+|.+||||||+.+.|..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            599999999999999998865

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.54  E-value=0.0014  Score=48.81  Aligned_cols=23  Identities=26%  Similarity=0.478  Sum_probs=20.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .++++|+.|+|||||++.+.+-.
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999988743

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.54  E-value=0.0014  Score=47.47  Aligned_cols=23  Identities=26%  Similarity=0.546  Sum_probs=20.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|+|.|.+||||||+.+.|..
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999998864

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=96.54  E-value=0.0013  Score=51.28  Aligned_cols=24  Identities=25%  Similarity=0.403  Sum_probs=21.7

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-+++|+|++|+|||||++.|.+.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999999874

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.54  E-value=0.0017  Score=48.99  Aligned_cols=24  Identities=21%  Similarity=0.342  Sum_probs=21.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...-|++.|++||||||+.+.|..
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            356799999999999999999975

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=96.51  E-value=0.0073  Score=48.34  Aligned_cols=24  Identities=21%  Similarity=0.182  Sum_probs=19.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHH
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFV   54 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~   54 (202)
                      .+..=|.|+|+.++|||+|+|.|+
T Consensus        65 ~~v~vvsv~G~~~~gks~l~N~ll   88 (457)
T 4ido_A           65 KEVVAVSVAGAFRKGKSFLMDFML   88 (457)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHH
T ss_pred             CceEEEEEECCCCCchhHHHHHHH
Confidence            455666699999999999999654

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.51  E-value=0.0017  Score=44.49  Aligned_cols=21  Identities=29%  Similarity=0.344  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +|+|.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998865

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.51  E-value=0.0018  Score=45.49  Aligned_cols=23  Identities=22%  Similarity=0.411  Sum_probs=20.2

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|+|.|.+||||||+.+.|..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998864

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.50  E-value=0.0019  Score=46.09  Aligned_cols=23  Identities=26%  Similarity=0.156  Sum_probs=20.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|+|.|.+||||||+.+.|..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            46799999999999999998875

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.49  E-value=0.0016  Score=47.02  Aligned_cols=22  Identities=18%  Similarity=0.262  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..|+|.|.+||||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.49  E-value=0.0019  Score=44.83  Aligned_cols=24  Identities=38%  Similarity=0.652  Sum_probs=20.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-.+++.|++|+|||+|++.+...
T Consensus        43 ~~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           43 KNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            356899999999999999988764

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.49  E-value=0.0021  Score=45.55  Aligned_cols=24  Identities=17%  Similarity=0.263  Sum_probs=21.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ...|+|.|.+||||||+++.|...
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            357999999999999999999874

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.49  E-value=0.0019  Score=46.80  Aligned_cols=21  Identities=19%  Similarity=0.319  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .|+|.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998864

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.49  E-value=0.0016  Score=48.76  Aligned_cols=20  Identities=25%  Similarity=0.498  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 028884           36 LVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~   55 (202)
                      ++++|++|+|||||++.+.+
T Consensus        47 vlL~Gp~GtGKTtLakala~   66 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVAN   66 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            99999999999999999987

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.49  E-value=0.0024  Score=45.44  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=21.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...-|+|+|.+|+|||||++.|.+
T Consensus        21 ~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            456799999999999999998865

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.48  E-value=0.0028  Score=44.31  Aligned_cols=24  Identities=29%  Similarity=0.403  Sum_probs=20.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +...|++.|.+|+||||+++.|..
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            356799999999999999998865

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.48  E-value=0.0024  Score=48.25  Aligned_cols=25  Identities=20%  Similarity=0.341  Sum_probs=21.2

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .....|+|+|++|||||||++.|..
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3467899999999999999987764

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.47  E-value=0.0025  Score=48.89  Aligned_cols=25  Identities=20%  Similarity=0.202  Sum_probs=21.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...+-|.|.|++|||||||++.|.+
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3467899999999999999988754

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=96.45  E-value=0.0018  Score=50.74  Aligned_cols=23  Identities=22%  Similarity=0.407  Sum_probs=20.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-.|+|+|++|||||||++.+.+
T Consensus       136 g~~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          136 MGLILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             SEEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            34699999999999999999887

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=96.44  E-value=0.0011  Score=50.46  Aligned_cols=23  Identities=43%  Similarity=0.548  Sum_probs=20.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      =.++|+|+.|+|||||++.+.+-
T Consensus        81 e~vaivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           81 QTLALVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             CEEEEESSSCHHHHHHHHHHTTS
T ss_pred             CEEEEECCCCchHHHHHHHHHcC
Confidence            36899999999999999988763

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.44  E-value=0.0015  Score=50.92  Aligned_cols=23  Identities=22%  Similarity=0.527  Sum_probs=21.0

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -.++|+|++|+|||||++.+.+-
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~  198 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQE  198 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            47999999999999999999874

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=96.44  E-value=0.0019  Score=47.61  Aligned_cols=21  Identities=29%  Similarity=0.544  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ++++|++|+|||||++.+.+.
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999999873

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.43  E-value=0.002  Score=46.02  Aligned_cols=23  Identities=30%  Similarity=0.329  Sum_probs=20.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|+|.|.+||||||+++.|..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999998875

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.42  E-value=0.0021  Score=44.49  Aligned_cols=22  Identities=18%  Similarity=0.312  Sum_probs=19.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..+.|+|.+|+|||||+.+|..
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999986

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.41  E-value=0.0019  Score=49.16  Aligned_cols=23  Identities=26%  Similarity=0.512  Sum_probs=20.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-.|+++|+.||||||+++.+.+
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            34788999999999999998875

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.40  E-value=0.0019  Score=50.19  Aligned_cols=22  Identities=36%  Similarity=0.406  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -++++|+.|||||||++.+.+-
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4789999999999999998874

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=96.40  E-value=0.0018  Score=50.42  Aligned_cols=23  Identities=26%  Similarity=0.455  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      -++++|+.|||||||++.+.+-.
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            47899999999999999998743

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.39  E-value=0.0021  Score=47.57  Aligned_cols=21  Identities=14%  Similarity=0.360  Sum_probs=18.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -|+|+|++|||||||.+.|..
T Consensus         3 li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999998865

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.39  E-value=0.0013  Score=44.67  Aligned_cols=25  Identities=24%  Similarity=0.421  Sum_probs=21.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .-.++++|++|+|||+|++.+.+..
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3468899999999999999988743

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=96.39  E-value=0.0018  Score=48.97  Aligned_cols=22  Identities=23%  Similarity=0.543  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            5789999999999999998874

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=96.39  E-value=0.0019  Score=51.37  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=20.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      =.|+|+|++|||||||++.+.+.
T Consensus       168 gii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          168 GIILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHhh
Confidence            35899999999999999999874

>3uc9_A Increased recombination centers protein 6; rossmann-fold, clathrin accessory factor; 1.80A {Saccharomyces cerevisiae}

Probab=96.38  E-value=0.0016  Score=47.25  Aligned_cols=25  Identities=4%  Similarity=-0.052  Sum_probs=20.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +.+=|++.|.++.||++|++++++.
T Consensus        28 nkilvl~~~~~~~~~~~~~~~lf~~   52 (233)
T 3uc9_A           28 NKILVLSDHPHNFLKTQFLQDLFHC   52 (233)
T ss_dssp             CEEEEEEEGGGHHHHHHHHHHHHCC
T ss_pred             CceEEEecCcccccHHHHHHHHhcc
Confidence            3455555599999999999999985

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=96.38  E-value=0.0015  Score=50.36  Aligned_cols=24  Identities=17%  Similarity=0.347  Sum_probs=21.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      -.++|+|++|+|||||++.+.+-.
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            379999999999999999998743

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.37  E-value=0.0028  Score=48.32  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=21.1

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ....|+|+|+.|||||||++.|.+
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            446799999999999999998876

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.37  E-value=0.0017  Score=47.95  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=21.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .....|+++|.+||||||+.+.|..
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999998865

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=96.37  E-value=0.0021  Score=50.11  Aligned_cols=22  Identities=36%  Similarity=0.489  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -++++|+.|||||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHHCC
Confidence            4789999999999999999874

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.35  E-value=0.0022  Score=50.05  Aligned_cols=22  Identities=36%  Similarity=0.498  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -++++|+.|||||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCchHHHHHHHHhcC
Confidence            4789999999999999998874

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.34  E-value=0.0026  Score=44.60  Aligned_cols=21  Identities=19%  Similarity=0.316  Sum_probs=19.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .|++.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998875

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=96.34  E-value=0.0022  Score=50.26  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      -++++|+.|||||||++.+.+-.
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHcCC
Confidence            47899999999999999998743

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.33  E-value=0.00089  Score=47.89  Aligned_cols=21  Identities=24%  Similarity=0.428  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -|+|.|.+||||||+++.|..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999998875

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.31  E-value=0.0019  Score=52.71  Aligned_cols=24  Identities=13%  Similarity=0.254  Sum_probs=21.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      -.++|+|++|||||||++.+.+-.
T Consensus       261 ~~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          261 FSAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            459999999999999999998743

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.31  E-value=0.0026  Score=44.81  Aligned_cols=23  Identities=22%  Similarity=0.417  Sum_probs=20.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|+|.|.+||||||+.+.|..
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999988865

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=96.30  E-value=0.0023  Score=50.06  Aligned_cols=23  Identities=30%  Similarity=0.447  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      -++++|+.|||||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCcHHHHHHHHHHcCC
Confidence            47899999999999999988743

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=96.30  E-value=0.0024  Score=49.98  Aligned_cols=22  Identities=41%  Similarity=0.465  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -++++|+.|||||||++.+.+-
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            4789999999999999998874

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.30  E-value=0.0025  Score=43.86  Aligned_cols=21  Identities=19%  Similarity=0.487  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .|+|.|.+||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998865

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=96.30  E-value=0.0024  Score=49.74  Aligned_cols=22  Identities=27%  Similarity=0.285  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -++++|+.|+|||||++.+.+-
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHhcC
Confidence            4789999999999999998874

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.29  E-value=0.0025  Score=45.93  Aligned_cols=21  Identities=33%  Similarity=0.681  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -++++|++|+|||||+..+.+
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~   45 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIA   45 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            578999999999999999885

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.28  E-value=0.0036  Score=43.72  Aligned_cols=22  Identities=32%  Similarity=0.493  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..|+|.|.+||||||+.+.|..
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.27  E-value=0.0032  Score=46.67  Aligned_cols=22  Identities=32%  Similarity=0.540  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..|+|.|.+||||||+.+.|..
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            5699999999999999998875

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.26  E-value=0.0033  Score=45.14  Aligned_cols=23  Identities=35%  Similarity=0.501  Sum_probs=20.7

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+.|+|.|.+||||||+++.|..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999999875

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=96.24  E-value=0.0028  Score=44.11  Aligned_cols=21  Identities=29%  Similarity=0.300  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -.+|+|+.|+|||||++.+..
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999998865

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.23  E-value=0.0038  Score=43.35  Aligned_cols=23  Identities=26%  Similarity=0.408  Sum_probs=20.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|++.|.+||||||+++.|..
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999998876

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.23  E-value=0.0028  Score=47.40  Aligned_cols=22  Identities=27%  Similarity=0.502  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|++|+|||||++.+.+.
T Consensus        75 gvll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           75 GVLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCcChHHHHHHHHHHH
Confidence            3899999999999999999873

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.23  E-value=0.0044  Score=47.11  Aligned_cols=24  Identities=17%  Similarity=0.336  Sum_probs=20.6

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +.--++++|+.|+||||+++.+.+
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            345788999999999999998875

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.23  E-value=0.0032  Score=43.23  Aligned_cols=21  Identities=38%  Similarity=0.499  Sum_probs=18.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +|+|.|.+||||||+.+.|..
T Consensus         9 ~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            9 HLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             EEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999988864

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.22  E-value=0.0031  Score=46.53  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=20.2

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHH
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFV   54 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~   54 (202)
                      ...|+|+|++||||||+++.|.
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            4589999999999999999887

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=96.22  E-value=0.0035  Score=44.35  Aligned_cols=85  Identities=13%  Similarity=0.020  Sum_probs=54.4

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcC--CCCCeEEEEEeCCCCCCCCCCChH
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHG--SPDIVMALVGNKADLHEKREVPAQ  160 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~p~ivv~nK~D~~~~~~~~~~  160 (202)
                      +.+.++|+|+..  .......+..+|.+|+++..+...  ..+...++.+....  .++.++.+|+|+.|....   ...
T Consensus        76 yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~~~---~~~  148 (206)
T 4dzz_A           76 YDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPLD--FSAAGSVVTVLEAQAYSRKVEARFLITRKIEMAT---MLN  148 (206)
T ss_dssp             SSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTTT--HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTTEE---EEH
T ss_pred             CCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHHH--HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCCch---HHH
Confidence            579999999854  233444566689999999887654  55566666665543  446678999999984221   223


Q ss_pred             HHHHHHHHcCCeEE
Q 028884          161 DGIEYAEKNGMFFI  174 (202)
Q Consensus       161 ~~~~~~~~~~~~~~  174 (202)
                      +..+.....+.+++
T Consensus       149 ~~~~~l~~~~~~vl  162 (206)
T 4dzz_A          149 VLKESIKDTGVKAF  162 (206)
T ss_dssp             HHHHHHHHHTCCBC
T ss_pred             HHHHHHHHcCCcee
Confidence            44444455554443

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.22  E-value=0.0028  Score=44.16  Aligned_cols=21  Identities=48%  Similarity=0.624  Sum_probs=18.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .|+|.|.+||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999988865

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=96.21  E-value=0.0019  Score=50.05  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -++++|+.|||||||++.+.+-
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTS
T ss_pred             EEEEECCCCccHHHHHHHHHcC
Confidence            5789999999999999998874

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.20  E-value=0.0045  Score=45.04  Aligned_cols=25  Identities=16%  Similarity=0.349  Sum_probs=21.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ...-|+|.|.+||||||+++.|...
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4577999999999999999988763

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.20  E-value=0.0024  Score=44.22  Aligned_cols=24  Identities=42%  Similarity=0.636  Sum_probs=20.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-.++|.|++|+|||+|++.+...
T Consensus        43 ~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            456899999999999999988763

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.20  E-value=0.0028  Score=48.85  Aligned_cols=23  Identities=22%  Similarity=0.411  Sum_probs=20.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -.+++.|++|+|||||++.+.+.
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            45899999999999999998873

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=96.20  E-value=0.0041  Score=47.83  Aligned_cols=83  Identities=11%  Similarity=0.071  Sum_probs=46.6

Q ss_pred             EEEEEeCCChhhhhh-----c--ccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC
Q 028884           84 KFEIWDTAGQERYAA-----L--APLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE  156 (202)
Q Consensus        84 ~~~i~D~~G~~~~~~-----~--~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~  156 (202)
                      .+.++|++|......     +  ....+ ..|-.+++.|.....   ++...+..+....  +. -++++||.|...   
T Consensus       213 d~vliDtaG~~~~~~~l~~eL~~i~ral-~~de~llvLDa~t~~---~~~~~~~~~~~~~--~i-t~iilTKlD~~a---  282 (328)
T 3e70_C          213 DVVLIDTAGRSETNRNLMDEMKKIARVT-KPNLVIFVGDALAGN---AIVEQARQFNEAV--KI-DGIILTKLDADA---  282 (328)
T ss_dssp             SEEEEEECCSCCTTTCHHHHHHHHHHHH-CCSEEEEEEEGGGTT---HHHHHHHHHHHHS--CC-CEEEEECGGGCS---
T ss_pred             hhhHHhhccchhHHHHHHHHHHHHHHHh-cCCCCEEEEecHHHH---HHHHHHHHHHHhc--CC-CEEEEeCcCCcc---
Confidence            466799999532111     1  01111 368889999976652   2222233333221  12 477789999522   


Q ss_pred             CChHHHHHHHHHcCCeEEEec
Q 028884          157 VPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~~~s  177 (202)
                       ............+.++..++
T Consensus       283 -~~G~~l~~~~~~~~pi~~i~  302 (328)
T 3e70_C          283 -RGGAALSISYVIDAPILFVG  302 (328)
T ss_dssp             -CCHHHHHHHHHHTCCEEEEE
T ss_pred             -chhHHHHHHHHHCCCEEEEe
Confidence             23345566677788877776

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.17  E-value=0.0036  Score=46.16  Aligned_cols=24  Identities=21%  Similarity=0.332  Sum_probs=21.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..+.|+|.|.+||||||+.+.|..
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999998865

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.16  E-value=0.002  Score=44.75  Aligned_cols=22  Identities=23%  Similarity=0.259  Sum_probs=15.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..|+|.|.+||||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5699999999999999999864

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=96.14  E-value=0.0037  Score=45.21  Aligned_cols=23  Identities=13%  Similarity=0.203  Sum_probs=20.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-.+++.|++|+|||+|++.+..
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~   74 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACA   74 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999998876

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.13  E-value=0.003  Score=47.63  Aligned_cols=22  Identities=27%  Similarity=0.359  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -++|+|++|+|||||+..+.+.
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            5789999999999999988764

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=96.11  E-value=0.0031  Score=49.67  Aligned_cols=22  Identities=41%  Similarity=0.684  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|||||||++.+.+-
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            5789999999999999988873

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=96.09  E-value=0.0037  Score=44.68  Aligned_cols=21  Identities=19%  Similarity=0.191  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -++++|++|+|||||+..+..
T Consensus        22 ~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999999987

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.07  E-value=0.0046  Score=45.58  Aligned_cols=23  Identities=17%  Similarity=0.401  Sum_probs=20.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ..+++.|++|+|||+|++.+.+.
T Consensus        46 ~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            45999999999999999998763

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.06  E-value=0.0041  Score=45.40  Aligned_cols=23  Identities=26%  Similarity=0.450  Sum_probs=20.7

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+.|+|.|++||||||+.+.|..
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            57899999999999999998864

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.06  E-value=0.0032  Score=50.73  Aligned_cols=24  Identities=21%  Similarity=0.365  Sum_probs=21.2

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-.++|+|+.|||||||++.+.+-
T Consensus       138 Ge~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          138 GPRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CCCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCc
Confidence            457999999999999999998874

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.05  E-value=0.0055  Score=43.79  Aligned_cols=23  Identities=26%  Similarity=0.369  Sum_probs=20.2

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|++.|.+|+||||+++.|..
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999998865

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=96.05  E-value=0.0041  Score=45.20  Aligned_cols=26  Identities=19%  Similarity=0.356  Sum_probs=22.2

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .+..-|+|.|..|||||||++.|.+.
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc
Confidence            34567999999999999999988774

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=96.04  E-value=0.0038  Score=50.58  Aligned_cols=106  Identities=12%  Similarity=0.111  Sum_probs=54.8

Q ss_pred             EEEEEEeCCChhhh-----hh---c---cccc-ccCccEEEEEEeCCChh-HHHHHHHHHHHHHHcCCCCCeEEEEEeCC
Q 028884           83 VKFEIWDTAGQERY-----AA---L---APLY-YRGAAVAVVVYDITSPD-SFNKAQYWVKELQKHGSPDIVMALVGNKA  149 (202)
Q Consensus        83 ~~~~i~D~~G~~~~-----~~---~---~~~~-~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~  149 (202)
                      +.+.++||+|....     ..   .   .... ....+-+++++|+.... .+..++.    +....  ++ -.+|+||.
T Consensus       376 ~DvVLIDTaGrl~~~~~lm~EL~kiv~iar~l~~~~P~evLLvLDattGq~al~~ak~----f~~~~--~i-tgvIlTKL  448 (503)
T 2yhs_A          376 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKL----FHEAV--GL-TGITLTKL  448 (503)
T ss_dssp             CSEEEECCCCSCCCHHHHHHHHHHHHHHHHTTCTTCSSEEEEEEEGGGTHHHHHHHHH----HHHHT--CC-SEEEEECG
T ss_pred             CCEEEEeCCCccchhhhHHHHHHHHHHHHHHhccCCCCeeEEEecCcccHHHHHHHHH----HHhhc--CC-CEEEEEcC
Confidence            46789999995311     11   1   1111 11246788899987652 2222222    33221  22 35678999


Q ss_pred             CCCCCCCCChHHHHHHHHHcCCeEEEeccC------CCCCHHHHHHHHHHHcCCCC
Q 028884          150 DLHEKREVPAQDGIEYAEKNGMFFIETSAK------TADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       150 D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~------~~~~i~~~~~~l~~~i~~~~  199 (202)
                      |...    ............+.++..+..-      ...+...+.+.|.....+.+
T Consensus       449 D~ta----kgG~~lsi~~~~~~PI~fig~Ge~vdDL~~f~~~~~v~~llg~~~~~~  500 (503)
T 2yhs_A          449 DGTA----KGGVIFSVADQFGIPIRYIGVGERIEDLRPFKADDFIEALFAREDHHH  500 (503)
T ss_dssp             GGCS----CCTHHHHHHHHHCCCEEEEECSSSGGGEEECCHHHHHHHHHCC-----
T ss_pred             CCcc----cccHHHHHHHHHCCCEEEEecCCChhhcccCCHHHHHHHHhccccccc
Confidence            9532    2334566666777776665432      22556666676665544433

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.04  E-value=0.0046  Score=43.77  Aligned_cols=23  Identities=30%  Similarity=0.446  Sum_probs=20.6

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ..+++.|++|+|||+|+..+...
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~   77 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANE   77 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            67999999999999999988763

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=96.03  E-value=0.005  Score=46.25  Aligned_cols=24  Identities=38%  Similarity=0.329  Sum_probs=21.1

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ....|+|.|.+||||||+.+.|..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998863

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=96.03  E-value=0.002  Score=50.15  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .++++|+.|||||||++.+.+-.
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            57899999999999999988743

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=96.03  E-value=0.0042  Score=45.16  Aligned_cols=23  Identities=17%  Similarity=0.202  Sum_probs=20.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      --++|+|++|+|||||+..+...
T Consensus        25 ~~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           25 SITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHH
Confidence            35789999999999999999874

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.98  E-value=0.0043  Score=45.83  Aligned_cols=23  Identities=26%  Similarity=0.362  Sum_probs=20.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-.|+++|.+|+||||+.+.|..
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998865

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.97  E-value=0.0067  Score=47.24  Aligned_cols=24  Identities=17%  Similarity=0.336  Sum_probs=20.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +.--|+++|+.|+||||+++.+.+
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHh
Confidence            445788999999999999998875

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=95.96  E-value=0.0051  Score=41.60  Aligned_cols=20  Identities=25%  Similarity=0.522  Sum_probs=17.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 028884           36 LVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+|+|+.|+|||||++.+..
T Consensus        26 ~~I~G~NGsGKStil~Ai~~   45 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAILV   45 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            47899999999999998753

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=95.95  E-value=0.0053  Score=41.16  Aligned_cols=24  Identities=17%  Similarity=0.199  Sum_probs=21.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ...|++.|++|+|||++.+.+...
T Consensus        24 ~~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           24 DIAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             CSCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHh
Confidence            456999999999999999998764

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=95.94  E-value=0.003  Score=48.38  Aligned_cols=24  Identities=25%  Similarity=0.378  Sum_probs=20.6

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      --++|+|..|+|||||++.+.+..
T Consensus         5 ~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            5 AVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cEEEEEecCCCCHHHHHHHHHhhc
Confidence            346799999999999999999753

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=95.92  E-value=0.003  Score=46.86  Aligned_cols=24  Identities=25%  Similarity=0.260  Sum_probs=21.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +...|+|.|..||||||+++.|..
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~   46 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQ   46 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999988875

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=95.91  E-value=0.0049  Score=46.53  Aligned_cols=22  Identities=27%  Similarity=0.443  Sum_probs=19.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..|++.|.+||||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999999876

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=95.84  E-value=0.0054  Score=47.54  Aligned_cols=26  Identities=27%  Similarity=0.486  Sum_probs=22.3

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      +.=+++++|+.|+|||||++.+.+..
T Consensus        70 ~Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           70 IGQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34478999999999999999999853

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=95.81  E-value=0.0072  Score=45.66  Aligned_cols=24  Identities=21%  Similarity=0.551  Sum_probs=20.3

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ....+++.|++|+|||++++.+..
T Consensus        66 ~~~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           66 PTLHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999986554

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=95.80  E-value=0.0062  Score=47.26  Aligned_cols=22  Identities=32%  Similarity=0.609  Sum_probs=19.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -+++.|++|+|||++++.+...
T Consensus        40 ~~ll~G~~G~GKT~la~~la~~   61 (373)
T 1jr3_A           40 AYLFSGTRGVGKTSIARLLAKG   61 (373)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999988763

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=95.79  E-value=0.0056  Score=47.98  Aligned_cols=24  Identities=13%  Similarity=0.235  Sum_probs=20.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +.-.++++|++|+|||||++.+.+
T Consensus       168 ~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          168 KKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            344789999999999999999886

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=95.78  E-value=0.0064  Score=45.94  Aligned_cols=25  Identities=28%  Similarity=0.314  Sum_probs=21.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ....+++.|+||+|||+|++.+...
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3467788899999999999988763

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=95.76  E-value=0.0068  Score=45.27  Aligned_cols=24  Identities=21%  Similarity=0.376  Sum_probs=21.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ...+++.|++|+|||+|++.+...
T Consensus        51 ~~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           51 PKGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             CSEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            456999999999999999999763

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=95.74  E-value=0.0077  Score=44.30  Aligned_cols=23  Identities=26%  Similarity=0.404  Sum_probs=20.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|++.|++|+|||+|++.+..
T Consensus        39 ~~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A           39 PKGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999999876

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=95.73  E-value=0.0094  Score=44.29  Aligned_cols=26  Identities=19%  Similarity=0.323  Sum_probs=22.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .....+++.|++|+|||+|++.+...
T Consensus        62 ~~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           62 TPLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            45678999999999999999998763

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=95.72  E-value=0.0071  Score=45.50  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=21.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...+++.|++|+|||+|++.+..
T Consensus        54 ~~~vll~Gp~GtGKT~la~~la~   76 (297)
T 3b9p_A           54 AKGLLLFGPPGNGKTLLARAVAT   76 (297)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHH
Confidence            46799999999999999999986

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=95.72  E-value=0.006  Score=45.62  Aligned_cols=23  Identities=26%  Similarity=0.387  Sum_probs=19.9

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .=-++|+|++|+|||||+..+..
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            34588999999999999998876

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.72  E-value=0.0053  Score=43.85  Aligned_cols=22  Identities=32%  Similarity=0.498  Sum_probs=19.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -.+++.|+||+|||+++..+..
T Consensus        59 n~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           59 NCLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             SEEEEESCGGGCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999888766

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=95.69  E-value=0.01  Score=44.82  Aligned_cols=24  Identities=25%  Similarity=0.430  Sum_probs=20.9

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-.+++.|++|+|||++++.+...
T Consensus        47 ~~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           47 IGSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             SEEEEEESCSSSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCcCHHHHHHHHHHH
Confidence            457999999999999999988763

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.67  E-value=0.0081  Score=42.47  Aligned_cols=23  Identities=22%  Similarity=0.326  Sum_probs=20.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|.+.|.+||||||+.+.|..
T Consensus        12 ~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           12 HMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            56799999999999999988865

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=95.66  E-value=0.0068  Score=49.04  Aligned_cols=22  Identities=36%  Similarity=0.539  Sum_probs=19.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      =.++|+|+.|+|||||++.+.+
T Consensus        30 e~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhc
Confidence            3578999999999999998876

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.64  E-value=0.0074  Score=49.63  Aligned_cols=26  Identities=23%  Similarity=0.267  Sum_probs=22.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      +.=.++++|+.|+|||||++.+.+-.
T Consensus        46 ~Ge~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           46 EGMVVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34468999999999999999998743

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.63  E-value=0.009  Score=43.49  Aligned_cols=25  Identities=16%  Similarity=0.298  Sum_probs=21.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .....|+|+|.+|+||||+.+.|..
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3456899999999999999988875

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.60  E-value=0.0074  Score=48.31  Aligned_cols=26  Identities=31%  Similarity=0.376  Sum_probs=22.1

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      +.=+++++|+.|+|||||++.+.+..
T Consensus       156 ~Gq~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          156 RGQRMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            34478999999999999999998853

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.54  E-value=0.0098  Score=43.28  Aligned_cols=23  Identities=30%  Similarity=0.505  Sum_probs=20.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+++.|+|.|||||||+...|..
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHHH
T ss_pred             ccceeeECCCCCCHHHHHHHHHH
Confidence            47899999999999999988854

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=95.52  E-value=0.007  Score=50.24  Aligned_cols=23  Identities=39%  Similarity=0.465  Sum_probs=20.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      =.++++|+.|+|||||++.+.+-
T Consensus       370 ~~~~ivG~sGsGKSTLl~~l~g~  392 (582)
T 3b60_A          370 KTVALVGRSGSGKSTIASLITRF  392 (582)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhhc
Confidence            36899999999999999998874

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=95.51  E-value=0.0095  Score=45.10  Aligned_cols=24  Identities=17%  Similarity=0.364  Sum_probs=21.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-.|++.|++|+|||+|++.+...
T Consensus        49 ~~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           49 SKGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             CSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCcCHHHHHHHHHHH
Confidence            456999999999999999998863

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=95.50  E-value=0.0081  Score=49.87  Aligned_cols=23  Identities=43%  Similarity=0.538  Sum_probs=20.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      =.++++|+.|+|||||++.+.+-
T Consensus       370 ~~~~ivG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          370 KTVALVGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            36889999999999999998874

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=95.49  E-value=0.0084  Score=45.79  Aligned_cols=23  Identities=17%  Similarity=0.304  Sum_probs=20.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-.+++.|++|+|||+|++.+..
T Consensus        37 ~~~lll~G~~GtGKT~la~~i~~   59 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQAAGN   59 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH
Confidence            35689999999999999998876

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=95.48  E-value=0.029  Score=44.58  Aligned_cols=24  Identities=25%  Similarity=0.301  Sum_probs=20.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...-|+++|.+||||||+.+.|..
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            345688999999999999999876

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=95.47  E-value=0.0083  Score=45.44  Aligned_cols=85  Identities=12%  Similarity=0.046  Sum_probs=46.6

Q ss_pred             EEEEEEeCCChhhhhh--c--cccccc--CccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC
Q 028884           83 VKFEIWDTAGQERYAA--L--APLYYR--GAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKRE  156 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~--~--~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~  156 (202)
                      ..+.++||+|......  +  ....+.  ..+.+++|+|.+..  ...+..+...+..   .+. .-+|+||.|....  
T Consensus       183 ~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~~--~~~~~~~~~~~~~---l~~-~giVltk~D~~~~--  254 (296)
T 2px0_A          183 YDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAK--YEDMKHIVKRFSS---VPV-NQYIFTKIDETTS--  254 (296)
T ss_dssp             SSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTBC--HHHHHHHTTTTSS---SCC-CEEEEECTTTCSC--
T ss_pred             CCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCCC--HHHHHHHHHHHhc---CCC-CEEEEeCCCcccc--
Confidence            4789999999653221  1  111222  35778889987754  2333333332221   111 3456799996432  


Q ss_pred             CChHHHHHHHHHcCCeEEEec
Q 028884          157 VPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       157 ~~~~~~~~~~~~~~~~~~~~s  177 (202)
                        ...........+.++..+.
T Consensus       255 --~g~~~~~~~~~~~pi~~i~  273 (296)
T 2px0_A          255 --LGSVFNILAESKIGVGFMT  273 (296)
T ss_dssp             --CHHHHHHHHTCSCCCSEEC
T ss_pred             --hhHHHHHHHHHCcCEEEEE
Confidence              2355666667777765543

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.45  E-value=0.0088  Score=43.48  Aligned_cols=21  Identities=29%  Similarity=0.553  Sum_probs=18.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -++|+|++|+|||||+..+..
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999877754

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=95.44  E-value=0.0047  Score=49.74  Aligned_cols=21  Identities=14%  Similarity=0.398  Sum_probs=18.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .++|.|.+|+|||+++..+..
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~   67 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIE   67 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            799999999999999987764

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=95.42  E-value=0.0099  Score=41.55  Aligned_cols=21  Identities=19%  Similarity=0.310  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      |+|+|.++||||+|..+|...
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            789999999999999999864

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.42  E-value=0.008  Score=49.41  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=20.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      -++++|+.|+|||||++.+.+..
T Consensus        27 i~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           27 ILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            57899999999999999998743

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=95.41  E-value=0.0094  Score=46.53  Aligned_cols=21  Identities=29%  Similarity=0.450  Sum_probs=18.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHH
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFV   54 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~   54 (202)
                      .+ .+|+|+.|+|||||++.+.
T Consensus        24 g~-~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           24 GI-TVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EE-EEEECCTTSSHHHHHHHHH
T ss_pred             Ce-EEEECCCCCCHHHHHHHHH
Confidence            45 4589999999999999876

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=95.41  E-value=0.0087  Score=46.41  Aligned_cols=23  Identities=22%  Similarity=0.418  Sum_probs=20.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-.++|.|++|+|||||++.+..
T Consensus        45 ~~~vli~G~~G~GKTtl~~~l~~   67 (386)
T 2qby_A           45 PNNIFIYGLTGTGKTAVVKFVLS   67 (386)
T ss_dssp             CCCEEEEECTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999998876

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.39  E-value=0.011  Score=41.72  Aligned_cols=21  Identities=29%  Similarity=0.374  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .|.|.|.+||||||+.+.|..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998865

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=95.39  E-value=0.011  Score=44.62  Aligned_cols=23  Identities=30%  Similarity=0.660  Sum_probs=20.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...+++.|++|+|||++++.+..
T Consensus        50 ~~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           50 PKNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998876

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.39  E-value=0.0093  Score=49.73  Aligned_cols=24  Identities=33%  Similarity=0.434  Sum_probs=20.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      =.++++|+.|+|||||++.+.+-.
T Consensus       104 ei~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          104 QVLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhcCC
Confidence            368899999999999999998743

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=95.39  E-value=0.01  Score=45.17  Aligned_cols=86  Identities=16%  Similarity=0.072  Sum_probs=47.3

Q ss_pred             EEEEEEeCCChhhhh--------hc---ccc-cccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCC
Q 028884           83 VKFEIWDTAGQERYA--------AL---APL-YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKAD  150 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~--------~~---~~~-~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D  150 (202)
                      ..+.++|+||.....        ..   ... .....|.+++|+|....  ...+... ..+....  ++ .-+|+||.|
T Consensus       187 ~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t~--~~~l~~a-~~~~~~~--~i-~gvVlTk~D  260 (306)
T 1vma_A          187 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTG--QNGLVQA-KIFKEAV--NV-TGIILTKLD  260 (306)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGH--HHHHHHH-HHHHHHS--CC-CEEEEECGG
T ss_pred             CCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCC--HHHHHHH-HHHHhcC--CC-CEEEEeCCC
Confidence            468999999952211        11   111 12347889999998744  2222221 2222221  22 456679999


Q ss_pred             CCCCCCCChHHHHHHHHHcCCeEEEecc
Q 028884          151 LHEKREVPAQDGIEYAEKNGMFFIETSA  178 (202)
Q Consensus       151 ~~~~~~~~~~~~~~~~~~~~~~~~~~s~  178 (202)
                      ...    ....+.......+.|+.++..
T Consensus       261 ~~~----~gG~~l~~~~~~~~Pi~~i~~  284 (306)
T 1vma_A          261 GTA----KGGITLAIARELGIPIKFIGV  284 (306)
T ss_dssp             GCS----CTTHHHHHHHHHCCCEEEEEC
T ss_pred             Ccc----chHHHHHHHHHHCCCEEEEeC
Confidence            532    223466777778888776653

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=95.38  E-value=0.0091  Score=46.31  Aligned_cols=25  Identities=16%  Similarity=0.231  Sum_probs=21.3

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +.--+.|+|++|+|||||+..+...
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~  154 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVM  154 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3446789999999999999999874

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=95.37  E-value=0.011  Score=46.06  Aligned_cols=22  Identities=27%  Similarity=0.474  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++|.|++|+|||+|++.+...
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~   67 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWEL   67 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999998864

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=95.36  E-value=0.01  Score=42.20  Aligned_cols=24  Identities=42%  Similarity=0.654  Sum_probs=21.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ...|+|+|++|+|||+|...|...
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            356899999999999999999864

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=95.33  E-value=0.0069  Score=46.60  Aligned_cols=23  Identities=17%  Similarity=0.366  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      -+++.|++|+|||++++.+...-
T Consensus        26 a~L~~G~~G~GKt~~a~~la~~l   48 (334)
T 1a5t_A           26 ALLIQALPGMGDDALIYALSRYL   48 (334)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCchHHHHHHHHHHHH
Confidence            48999999999999999887643

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.32  E-value=0.011  Score=48.60  Aligned_cols=23  Identities=22%  Similarity=0.433  Sum_probs=20.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .++|+|+.|+|||||++.+.+-.
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999998843

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=95.30  E-value=0.013  Score=44.73  Aligned_cols=24  Identities=25%  Similarity=0.398  Sum_probs=21.3

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +...|++.|++|+|||+|++.+..
T Consensus        50 ~~~~vLl~GppGtGKT~la~aia~   73 (322)
T 3eie_A           50 PTSGILLYGPPGTGKSYLAKAVAT   73 (322)
T ss_dssp             CCCEEEEECSSSSCHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHH
Confidence            346799999999999999999876

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=95.27  E-value=0.03  Score=40.51  Aligned_cols=23  Identities=17%  Similarity=0.148  Sum_probs=17.9

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..-+++.|++|+||||++-++..
T Consensus        12 G~i~litG~mGsGKTT~ll~~~~   34 (223)
T 2b8t_A           12 GWIEFITGPMFAGKTAELIRRLH   34 (223)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHH
T ss_pred             cEEEEEECCCCCcHHHHHHHHHH
Confidence            34567889999999998865553

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.26  E-value=0.017  Score=44.85  Aligned_cols=23  Identities=39%  Similarity=0.664  Sum_probs=19.8

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..+|+++|++|+||||+.+.|..
T Consensus        24 ~~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A           24 RVCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHHH
Confidence            46899999999999999986654

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=95.25  E-value=0.081  Score=38.31  Aligned_cols=86  Identities=14%  Similarity=0.105  Sum_probs=55.8

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHH
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDG  162 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  162 (202)
                      +.+.++|+|+..  .......+..+|.+|+++..+ ..+...+..+++.+.....+...+.+|+|+.+...  ....   
T Consensus       119 yD~viiD~p~~~--~~~~~~~l~~ad~viiv~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~v~N~~~~~~--~~~~---  190 (245)
T 3ea0_A          119 YDYIIVDFGASI--DHVGVWVLEHLDELCIVTTPS-LQSLRRAGQLLKLCKEFEKPISRIEIILNRADTNS--RITS---  190 (245)
T ss_dssp             CSEEEEEEESSC--CTTHHHHGGGCSEEEEEECSS-HHHHHHHHHHHHHHHTCSSCCSCEEEEEESTTSCT--TSCH---
T ss_pred             CCEEEEeCCCCC--chHHHHHHHHCCEEEEEecCc-HHHHHHHHHHHHHHHHhCCCccceEEEEecCCCCC--CCCH---
Confidence            578999998753  223444567799999998875 44567777777777765444456889999998432  2222   


Q ss_pred             HHHHHHcCCeEEEe
Q 028884          163 IEYAEKNGMFFIET  176 (202)
Q Consensus       163 ~~~~~~~~~~~~~~  176 (202)
                      ..+....+.+++..
T Consensus       191 ~~~~~~~~~~v~~~  204 (245)
T 3ea0_A          191 DEIEKVIGRPISKR  204 (245)
T ss_dssp             HHHHHHHTSCEEEE
T ss_pred             HHHHHHhCCCeEEE
Confidence            23334456665544

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.23  E-value=0.0099  Score=48.85  Aligned_cols=23  Identities=26%  Similarity=0.432  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .++|+|+.|+|||||++.+.+-.
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46899999999999999998743

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.23  E-value=0.014  Score=44.68  Aligned_cols=25  Identities=24%  Similarity=0.367  Sum_probs=21.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +.-.|++.|++|+|||+|++.+...
T Consensus        44 ~~~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           44 PWRGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CCceEEEECCCCccHHHHHHHHHHH
Confidence            3467999999999999999999863

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.23  E-value=0.012  Score=45.01  Aligned_cols=22  Identities=18%  Similarity=0.463  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..|+|+|++|||||||...|..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998875

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.22  E-value=0.012  Score=49.05  Aligned_cols=23  Identities=22%  Similarity=0.433  Sum_probs=20.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .++|+|+.|+|||||++.+.+..
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999998843

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=95.20  E-value=0.18  Score=38.19  Aligned_cols=21  Identities=14%  Similarity=0.327  Sum_probs=16.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +++-|++|+|||++++.+...
T Consensus        51 ~L~~G~~G~GKT~la~~la~~   71 (324)
T 3u61_B           51 ILHSPSPGTGKTTVAKALCHD   71 (324)
T ss_dssp             EEECSSTTSSHHHHHHHHHHH
T ss_pred             EEeeCcCCCCHHHHHHHHHHH
Confidence            455566999999999999763

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.18  E-value=0.011  Score=49.25  Aligned_cols=26  Identities=19%  Similarity=0.243  Sum_probs=21.8

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      +.=.++++|+.|+|||||++.+.+..
T Consensus       116 ~Ge~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          116 DGMVVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            34468999999999999999998743

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=95.14  E-value=0.014  Score=41.52  Aligned_cols=20  Identities=25%  Similarity=0.521  Sum_probs=17.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHH
Q 028884           35 KLVLLGDSGVGKSCIVLRFV   54 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~   54 (202)
                      -.+|+|+.|+|||||++.+.
T Consensus        25 ~~~I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           25 INLIIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEcCCCCCHHHHHHHHH
Confidence            34688999999999998775

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.14  E-value=0.0079  Score=50.11  Aligned_cols=24  Identities=38%  Similarity=0.522  Sum_probs=20.9

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .=.++++|+.|+|||||++.+.+-
T Consensus       381 G~~~~ivG~sGsGKSTll~~l~g~  404 (598)
T 3qf4_B          381 GQKVALVGPTGSGKTTIVNLLMRF  404 (598)
T ss_dssp             TCEEEEECCTTSSTTHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            347899999999999999988873

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.13  E-value=0.013  Score=45.14  Aligned_cols=22  Identities=18%  Similarity=0.484  Sum_probs=19.6

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-|+|.|++|||||||...|..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            4689999999999999998875

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.11  E-value=0.013  Score=45.08  Aligned_cols=22  Identities=27%  Similarity=0.643  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ++++.|++|+||||+++.+.+.
T Consensus        48 ~~ll~Gp~G~GKTtla~~la~~   69 (340)
T 1sxj_C           48 HLLFYGPPGTGKTSTIVALARE   69 (340)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999988764

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=95.05  E-value=0.016  Score=44.19  Aligned_cols=22  Identities=18%  Similarity=0.403  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -|+|+|++|||||+|...|...
T Consensus         5 ~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEECCCcCCHHHHHHHHHHh
Confidence            4789999999999999999763

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=95.03  E-value=0.0071  Score=50.17  Aligned_cols=24  Identities=29%  Similarity=0.319  Sum_probs=20.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .=.++++|+.|+|||||++.+.+-
T Consensus       367 G~~~~ivG~sGsGKSTll~~l~g~  390 (578)
T 4a82_A          367 GETVAFVGMSGGGKSTLINLIPRF  390 (578)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTTTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcC
Confidence            346889999999999999887763

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.02  E-value=0.018  Score=41.99  Aligned_cols=23  Identities=30%  Similarity=0.433  Sum_probs=20.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ..|+|-|..|+||||+++.|...
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            56899999999999999988763

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.01  E-value=0.014  Score=44.94  Aligned_cols=23  Identities=35%  Similarity=0.566  Sum_probs=20.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-|+|+|++|+|||+|...|...
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998763

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.01  E-value=0.014  Score=48.63  Aligned_cols=22  Identities=27%  Similarity=0.640  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      ++++|+.|+|||||++.+.+-.
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCC
Confidence            6899999999999999998744

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.99  E-value=0.018  Score=45.97  Aligned_cols=24  Identities=17%  Similarity=0.279  Sum_probs=21.6

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +.-.|++.|+||+|||+|++.+.+
T Consensus       214 ~prGvLLyGPPGTGKTllAkAiA~  237 (434)
T 4b4t_M          214 APKGALMYGPPGTGKTLLARACAA  237 (434)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CCCeeEEECcCCCCHHHHHHHHHH
Confidence            456799999999999999999987

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=94.99  E-value=0.018  Score=44.15  Aligned_cols=24  Identities=17%  Similarity=0.295  Sum_probs=20.8

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ...|++.|++|+|||+|++.+...
T Consensus        55 ~~~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           55 LDHILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHH
Confidence            346999999999999999999663

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=94.99  E-value=0.013  Score=45.53  Aligned_cols=23  Identities=26%  Similarity=0.456  Sum_probs=20.7

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-.++|.|++|+|||+|++.+..
T Consensus        44 ~~~vll~G~~G~GKT~l~~~~~~   66 (387)
T 2v1u_A           44 PSNALLYGLTGTGKTAVARLVLR   66 (387)
T ss_dssp             CCCEEECBCTTSSHHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998876

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.98  E-value=0.009  Score=49.67  Aligned_cols=23  Identities=30%  Similarity=0.453  Sum_probs=20.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      =.++++|+.|+|||||++.+.+-
T Consensus       370 e~~~ivG~sGsGKSTll~~l~g~  392 (587)
T 3qf4_A          370 SLVAVLGETGSGKSTLMNLIPRL  392 (587)
T ss_dssp             CEEEEECSSSSSHHHHHHTTTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            36899999999999999988763

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=94.97  E-value=0.016  Score=44.36  Aligned_cols=23  Identities=35%  Similarity=0.462  Sum_probs=20.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -.++|.|+.|+|||||++.+...
T Consensus        32 ~~v~i~G~~G~GKT~Ll~~~~~~   54 (350)
T 2qen_A           32 PLTLLLGIRRVGKSSLLRAFLNE   54 (350)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCcCCHHHHHHHHHHH
Confidence            36889999999999999999864

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=94.94  E-value=0.016  Score=44.57  Aligned_cols=22  Identities=23%  Similarity=0.626  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ++++.|++|+|||++++.+...
T Consensus        60 ~~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           60 HMLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4999999999999999988763

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=94.93  E-value=0.018  Score=43.84  Aligned_cols=23  Identities=35%  Similarity=0.606  Sum_probs=20.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-.+++.|++|+|||+|+..+..
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~  174 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAH  174 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999988775

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=94.93  E-value=0.016  Score=44.90  Aligned_cols=23  Identities=22%  Similarity=0.562  Sum_probs=20.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -.+++.|++|+|||+|++.+...
T Consensus        71 ~~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999988763

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=94.93  E-value=0.052  Score=38.68  Aligned_cols=85  Identities=12%  Similarity=0.083  Sum_probs=53.2

Q ss_pred             EEEEEEeCCCh-hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHH
Q 028884           83 VKFEIWDTAGQ-ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQD  161 (202)
Q Consensus        83 ~~~~i~D~~G~-~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  161 (202)
                      +.+.++|+|+. ..  ......+..+|.+|++...+. .+...+...++.+....  +.++.+|+|+.+....  ....+
T Consensus        68 yD~viiD~p~~~~~--~~~~~~l~~aD~viiv~~~~~-~~~~~~~~~~~~l~~~~--~~~~~vv~N~~~~~~~--~~~~~  140 (209)
T 3cwq_A           68 YQNIVIDTQARPED--EDLEALADGCDLLVIPSTPDA-LALDALMLTIETLQKLG--NNRFRILLTIIPPYPS--KDGDE  140 (209)
T ss_dssp             CSEEEEEEECCCSS--SHHHHHHHTSSEEEEEECSSH-HHHHHHHHHHHHHHHTC--SSSEEEEECSBCCTTS--CHHHH
T ss_pred             CCEEEEeCCCCcCc--HHHHHHHHHCCEEEEEecCCc-hhHHHHHHHHHHHHhcc--CCCEEEEEEecCCccc--hHHHH
Confidence            57999999875 32  223345667899999988764 34666666666666542  4568899999984320  11334


Q ss_pred             HHHHHHHcCCeEE
Q 028884          162 GIEYAEKNGMFFI  174 (202)
Q Consensus       162 ~~~~~~~~~~~~~  174 (202)
                      ..+..+..+.+++
T Consensus       141 ~~~~l~~~g~~v~  153 (209)
T 3cwq_A          141 ARQLLTTAGLPLF  153 (209)
T ss_dssp             HHHHHHHTTCCBC
T ss_pred             HHHHHHHcCCchh
Confidence            4444444554433

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.91  E-value=0.019  Score=45.69  Aligned_cols=23  Identities=26%  Similarity=0.449  Sum_probs=20.7

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .--|++.|+||+|||+|++.+.+
T Consensus       206 prGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          206 PRGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             CCEEEEESCTTTTHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            44699999999999999999886

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=94.91  E-value=0.0071  Score=44.78  Aligned_cols=22  Identities=23%  Similarity=0.450  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .+++.|++|+|||+|++.+...
T Consensus        46 ~vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4889999999999999988763

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=94.89  E-value=0.016  Score=45.54  Aligned_cols=25  Identities=20%  Similarity=0.275  Sum_probs=22.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ..-+++|+|++|+|||++++.+...
T Consensus        34 ~~~~~~i~G~~G~GKs~~~~~~~~~   58 (392)
T 4ag6_A           34 TNSNWTILAKPGAGKSFTAKMLLLR   58 (392)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ccCceEEEcCCCCCHHHHHHHHHHH
Confidence            4568999999999999999988864

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=94.87  E-value=0.019  Score=44.81  Aligned_cols=24  Identities=21%  Similarity=0.569  Sum_probs=21.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ...+++.|++|+|||++++.+...
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~   95 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKH   95 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHH
Confidence            457999999999999999988763

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=94.86  E-value=0.015  Score=46.95  Aligned_cols=24  Identities=33%  Similarity=0.606  Sum_probs=20.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-++++.|++|+|||++++.+...
T Consensus       201 ~~~~LL~G~pG~GKT~la~~la~~  224 (468)
T 3pxg_A          201 KNNPVLIGEPGVGKTAIAEGLAQQ  224 (468)
T ss_dssp             SCEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHH
Confidence            347899999999999999988753

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=94.85  E-value=0.016  Score=45.85  Aligned_cols=21  Identities=24%  Similarity=0.265  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -++|+|++|+|||||+..+..
T Consensus       180 i~~I~G~sGsGKTTLl~~la~  200 (400)
T 3lda_A          180 ITELFGEFRTGKSQLCHTLAV  200 (400)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCChHHHHHHHHH
Confidence            588999999999999998763

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.84  E-value=0.019  Score=41.08  Aligned_cols=22  Identities=32%  Similarity=0.495  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..|++.|.+||||||+.+.|..
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999988765

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=94.82  E-value=0.019  Score=42.43  Aligned_cols=23  Identities=26%  Similarity=0.459  Sum_probs=20.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ..|++.|++|+|||+|++.+...
T Consensus        30 ~~vll~G~~GtGKt~la~~i~~~   52 (265)
T 2bjv_A           30 KPVLIIGERGTGKELIASRLHYL   52 (265)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHT
T ss_pred             CCEEEECCCCCcHHHHHHHHHHh
Confidence            57999999999999999999874

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=94.82  E-value=0.015  Score=44.53  Aligned_cols=25  Identities=8%  Similarity=-0.032  Sum_probs=21.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ..-.++|.|+||+|||++++.+...
T Consensus        44 ~~~~lli~GpPGTGKT~~v~~v~~~   68 (318)
T 3te6_A           44 QNKLFYITNADDSTKFQLVNDVMDE   68 (318)
T ss_dssp             CCCEEEEECCCSHHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            4568899999999999999988764

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=94.81  E-value=0.021  Score=44.37  Aligned_cols=24  Identities=25%  Similarity=0.343  Sum_probs=21.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ....|++.|++|+|||+|++.+..
T Consensus       116 ~~~~vLl~GppGtGKT~la~aia~  139 (357)
T 3d8b_A          116 PPKGILLFGPPGTGKTLIGKCIAS  139 (357)
T ss_dssp             CCSEEEEESSTTSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999999976

---

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	202
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	3e-54
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	8e-52
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	2e-51
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	4e-51
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	4e-48
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	5e-48
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	2e-47
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	2e-47
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	3e-47
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	3e-47
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	4e-47
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	1e-46
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	2e-45
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	5e-44
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	5e-43
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	5e-41
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	1e-40
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	2e-40
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	7e-40
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	9e-40
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	9e-39
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	2e-38
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	7e-38
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	2e-37
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	4e-37
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	4e-37
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	2e-36
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	3e-36
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	3e-36
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	4e-36
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	4e-36
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	3e-35
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-34
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	2e-34
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	2e-34
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	2e-33
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	1e-32
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-32
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	4e-31
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	4e-30
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	5e-30
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	2e-29
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	2e-29
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	4e-29
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	5e-28
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	5e-27
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	4e-26
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-25
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	5e-25
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	7e-25
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	3e-22
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	6e-21
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	2e-20
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	4e-20
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	2e-19
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	7e-13
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	8e-13
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	2e-10
d1wf3a1	178	c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {	3e-09
d1mkya1	171	c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal	2e-08
d1udxa2	180	c.37.1.8 (A:157-336) Obg GTP-binding protein middl	5e-08
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	6e-08
d2cxxa1	184	c.37.1.8 (A:2-185) GTP-binding protein engB {Pyroc	1e-07
d1egaa1	179	c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {	2e-07
d1mkya2	186	c.37.1.8 (A:173-358) Probable GTPase Der, N-termin	4e-07
d1xzpa2	160	c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotog	7e-07
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	8e-07
d2qn6a3	205	c.37.1.8 (A:2-206) Initiation factor eIF2 gamma su	9e-07
d1svia_	195	c.37.1.8 (A:) Probable GTPase EngB {Bacillus subti	5e-05
d1lnza2	185	c.37.1.8 (A:158-342) Obg GTP-binding protein middl	9e-05
d1h65a_	257	c.37.1.8 (A:) Chloroplast protein translocon GTPas	5e-04
d1kk1a3	195	c.37.1.8 (A:6-200) Initiation factor eIF2 gamma su	9e-04
d1wb1a4	179	c.37.1.8 (A:1-179) Elongation factor SelB, N-termi	0.003

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  168 bits (427), Expect = 3e-54
 Identities = 67/161 (41%), Positives = 104/161 (64%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+GDSGVGK+C++ RF    F+ T   T+G  F  +TI L D   +K +IWDTAGQE
Sbjct: 8   KLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIEL-DGKRIKLQIWDTAGQE 66

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRGA   ++VYDIT+  SF+  + W++ +++H S D+   ++GNK D+++K
Sbjct: 67  RFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDK 126

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R+V  + G + A   G+ F+ETSAK   N+   F  +A+ +
Sbjct: 127 RQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDI 167

>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 =  162 bits (410), Expect = 8e-52
 Identities = 69/161 (42%), Positives = 105/161 (65%), Gaps = 2/161 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++L+GDSGVGKSC+++RFV  +F+P+   T+G  F  +T+ +     VK +IWDTAGQE
Sbjct: 4   KILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDING-KKVKLQIWDTAGQE 62

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRGA   ++VYDIT   +F   + W K + +H + +  + LVGNK+D+   
Sbjct: 63  RFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-T 121

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R V A  G   A++ G+ FIE+SAK  DN+N++F  +AK +
Sbjct: 122 RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLI 162

>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 =  161 bits (408), Expect = 2e-51
 Identities = 66/164 (40%), Positives = 105/164 (64%), Gaps = 2/164 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTS-KVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           K++L+GDSGVGK+C+++RF  G F   +   TVG  F ++ + +     VK ++WDTAGQ
Sbjct: 8   KVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDG-VKVKLQMWDTAGQ 66

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           ER+ ++   YYR A   +++YD+T+  SF+  Q W+ E+ ++   D+ + L+GNK D   
Sbjct: 67  ERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAH 126

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           +R V  +DG + A++ G+ F+ETSAKT  N++  F  IAK L R
Sbjct: 127 ERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKR 170

>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 =  160 bits (406), Expect = 4e-51
 Identities = 70/161 (43%), Positives = 109/161 (67%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VL+G++GVGK+C+V RF +G F P    T+G  F+ +T+ + +   VK +IWDTAGQE
Sbjct: 7   KIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEI-NGEKVKLQIWDTAGQE 65

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ ++   YYR A   ++ YDIT  +SF     W++E++++ S  ++  LVGNK DL E+
Sbjct: 66  RFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAER 125

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           REV  Q   E++E   M+++ETSAK +DN+ +LF ++A RL
Sbjct: 126 REVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRL 166

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  153 bits (386), Expect = 4e-48
 Identities = 66/164 (40%), Positives = 102/164 (62%), Gaps = 1/164 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G+SGVGKS ++LRF    FDP    T+G  F  +TI++ D    K  IWDTAGQE
Sbjct: 9   KILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISV-DGNKAKLAIWDTAGQE 67

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  L P YYRGA   ++VYD+T  D+F K   W+ EL+ + + + ++ ++       E 
Sbjct: 68  RFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN 127

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRP 198
           REV   +G+++A K+ M FIE SAKT D +   FEE+ +++ + 
Sbjct: 128 REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQT 171

>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 =  152 bits (385), Expect = 5e-48
 Identities = 66/161 (40%), Positives = 105/161 (65%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K +++GD GVGKSC++ +F   +F      T+G  F ++ I +     +K +IWDTAGQE
Sbjct: 6   KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEV-SGQKIKLQIWDTAGQE 64

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ A+   YYRGAA A++VYDIT   ++N    W+ + +   +P+ V+ L+GNKADL  +
Sbjct: 65  RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQ 124

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R+V  ++  ++AE+NG+ F+E SAKT +N+   F E AK++
Sbjct: 125 RDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 165

>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 =  151 bits (383), Expect = 2e-47
 Identities = 66/164 (40%), Positives = 102/164 (62%), Gaps = 1/164 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+L+G+SGVGKSC++LRF    +      T+G  F  +T+ L    TVK +IWDTAGQE
Sbjct: 8   KLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDG-KTVKLQIWDTAGQE 66

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+  +   YYRG+   ++VYD+T  +SFN  + W++E+ ++ +  ++  LVGNK DL +K
Sbjct: 67  RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK 126

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRP 198
           R V      E+A+ N M F+ETSA  + N+   F  +A+++   
Sbjct: 127 RVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKES 170

>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 =  151 bits (382), Expect = 2e-47
 Identities = 75/163 (46%), Positives = 107/163 (65%), Gaps = 1/163 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VL+GDSGVGKS ++ RF R +F+  SK T+G  F +++I + D  T+K +IWDTAGQE
Sbjct: 6   KVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQV-DGKTIKAQIWDTAGQE 64

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY  +   YYRGA  A++VYDI    ++   + W+KEL+ H   +IV+ LVGNK+DL   
Sbjct: 65  RYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL 124

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           R VP  +   +AEKN + FIETSA  + N+ + F+ I   + R
Sbjct: 125 RAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYR 167

>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 =  150 bits (380), Expect = 3e-47
 Identities = 71/162 (43%), Positives = 107/162 (66%), Gaps = 1/162 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV LG+  VGK+ ++ RF+   FD T + T+G  FLS+T+   +  T++ ++WDTAGQE
Sbjct: 2   KLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMY-LEDRTIRLQLWDTAGQE 60

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ +L P Y R +A AVVVYDIT+ +SF +   W+ +++     D+++ LVGNK DL +K
Sbjct: 61  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 120

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           R+V  ++G   A++  + FIETSAK   N+ QLF  +A  LP
Sbjct: 121 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP 162

>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 =  150 bits (380), Expect = 3e-47
 Identities = 61/161 (37%), Positives = 94/161 (58%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G+S VGK+  + R+    F P    TVG  F  +TI   D   +K +IWDTAGQE
Sbjct: 7   KILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRND-KRIKLQIWDTAGQE 65

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY  +   YYRGA   +++YDIT+ +SFN  Q W  +++ +   +  + LVGNK D+ ++
Sbjct: 66  RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDE 125

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R V ++ G + A+  G  F E SAK   N+ Q FE +   +
Sbjct: 126 RVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVI 166

>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 =  151 bits (381), Expect = 4e-47
 Identities = 58/172 (33%), Positives = 96/172 (55%), Gaps = 10/172 (5%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQ---------DSTTVK 84
           +KL+ LGDSGVGK+  + R+   +F+P    TVG  F  + +             +  V 
Sbjct: 6   IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVH 65

Query: 85  FEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPD-IVMA 143
            ++WDTAGQER+ +L   ++R A   ++++D+TS  SF   + W+ +LQ +   +   + 
Sbjct: 66  LQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV 125

Query: 144 LVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           L+GNKADL ++REV  +   E A+K G+ + ETSA T  N+ +  E +   +
Sbjct: 126 LIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLI 177

>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 =  149 bits (376), Expect = 1e-46
 Identities = 67/163 (41%), Positives = 112/163 (68%), Gaps = 1/163 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K +++GD+GVGKSC++L+F   +F P   +T+G  F ++ + +     +K +IWDTAGQE
Sbjct: 5   KYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDG-KQIKLQIWDTAGQE 63

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
            + ++   YYRGAA A++VYDIT  ++FN    W+++ ++H S ++V+ L+GNK+DL  +
Sbjct: 64  SFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESR 123

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           R+V  ++G  +A ++G+ F+ETSAKTA N+ + F   AK + R
Sbjct: 124 RDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYR 166

>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 =  146 bits (369), Expect = 2e-45
 Identities = 64/161 (39%), Positives = 103/161 (63%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K +++G++G GKSC++ +F+  +F   S  T+G  F S+ I       VK +IWDTAGQE
Sbjct: 7   KFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIIN-VGGKYVKLQIWDTAGQE 65

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ ++   YYRGAA A++VYDITS +++N    W+ + +   S +IV+ L GNK DL   
Sbjct: 66  RFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDAD 125

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           REV   +   +A++N + F+ETSA T +N+ + F + A+++
Sbjct: 126 REVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKI 166

>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 =  142 bits (359), Expect = 5e-44
 Identities = 102/163 (62%), Positives = 130/163 (79%), Gaps = 1/163 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLVLLG+S VGKS +VLRFV+GQF    + T+GA+FL+QT+ L D TTVKFEIWDTAGQE
Sbjct: 8   KLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDD-TTVKFEIWDTAGQE 66

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           RY +LAP+YYRGA  A+VVYDIT+ +SF +A+ WVKELQ+  SP+IV+AL GNKADL  K
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           R V  Q+   YA+ N + F+ETSAKT+ N+N++F  IAK+LP+
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  140 bits (352), Expect = 5e-43
 Identities = 54/162 (33%), Positives = 90/162 (55%), Gaps = 3/162 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+V+LG  GVGKS + ++FV G F      T+   +  +     DS+    EI DTAG E
Sbjct: 5   KVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKEIE--VDSSPSVLEILDTAGTE 62

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHE 153
           ++A++  LY +     ++VY + +  SF   +    ++ +      + + LVGNK DL  
Sbjct: 63  QFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLES 122

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           +REV + +G   AE+ G  F+ETSAK+   +++LF EI +++
Sbjct: 123 EREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQM 164

>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 =  135 bits (339), Expect = 5e-41
 Identities = 73/161 (45%), Positives = 102/161 (63%), Gaps = 1/161 (0%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+VLLG+  VGK+ +VLR+   +F+     T+GASFL++ + +     V   IWDTAGQE
Sbjct: 5   KVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGG-KRVNLAIWDTAGQE 63

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           R+ AL P+YYR +  A++VYDIT  DSF K + WVKEL+K    +I + +VGNK DL ++
Sbjct: 64  RFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE 123

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           R V  Q+   YAE  G     TSAK    I +LF ++ KR+
Sbjct: 124 RHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRM 164

>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 =  134 bits (337), Expect = 1e-40
 Identities = 85/164 (51%), Positives = 114/164 (69%), Gaps = 1/164 (0%)

Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
            +K+ LLGD+GVGKS I+ RFV   FDP    T+GASF         +   KF IWDTAG
Sbjct: 4   ELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASF-MTKTVQYQNELHKFLIWDTAG 62

Query: 93  QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
            ER+ ALAP+YYRG+A A++VYDIT  ++F+  + WV+EL++HG P IV+A+ GNK DL 
Sbjct: 63  LERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLT 122

Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           + REV  +D  +YA+     F+ETSAK A NIN+LF EI++R+P
Sbjct: 123 DVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIP 166

>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 =  133 bits (334), Expect = 2e-40
 Identities = 89/166 (53%), Positives = 123/166 (74%), Gaps = 4/166 (2%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +KLVLLG++ VGKS IVLRFV   F    + T+GA+FL+Q +   +  TVKFEIWDTAGQ
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVT-INEHTVKFEIWDTAGQ 62

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           ER+A+LAP+YYR A  A+VVYD+T P SF KA++WVKEL +  S DI++ALVGNK D+ +
Sbjct: 63  ERFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQ 122

Query: 154 K---REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           +   R+V  ++G + AE+ G+ F ETSAKT +N+N +F  I +++P
Sbjct: 123 EGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIP 168

>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 =  132 bits (333), Expect = 7e-40
 Identities = 43/178 (24%), Positives = 71/178 (39%), Gaps = 15/178 (8%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +K V++GD  VGK+C+++ +   +F      TV  ++    +           ++DTAGQ
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVM--IGGEPYTLGLFDTAGQ 61

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
           E Y  L PL Y    V +V + + SP SF   +        H  P     LVG + DL +
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRD 121

Query: 154 KREV------------PAQDGIEYAEK-NGMFFIETSAKTADNINQLFEEIAKRLPRP 198
                             +   + A     + ++E SA T   +  +F+E       P
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEP 179

>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 =  131 bits (330), Expect = 9e-40
 Identities = 50/162 (30%), Positives = 94/162 (58%), Gaps = 3/162 (1%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++G  GVGKS + L+F+  +F    + T   S+  + +   D   V+ +I DTAGQE
Sbjct: 6   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV--LDGEEVQIDILDTAGQE 63

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHE 153
            YAA+   Y+R     + V+ IT  +SF     + +++ +     ++   LVGNK+DL +
Sbjct: 64  DYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLED 123

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           KR+V  ++    A++  + ++ETSAKT  N++++F ++ + +
Sbjct: 124 KRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREI 165

>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 =  129 bits (325), Expect = 9e-39
 Identities = 49/181 (27%), Positives = 85/181 (46%), Gaps = 15/181 (8%)

Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
            +K V++GD  VGK+C+++ +    F      TV  ++ +  +   D   V   +WDTAG
Sbjct: 5   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM--VDGKPVNLGLWDTAG 62

Query: 93  QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           QE Y  L PL Y    V+++ + + SP SF   +       +H  P+  + LVG K DL 
Sbjct: 63  QEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLR 122

Query: 153 EKREVP------------AQDGIEYAEKNG-MFFIETSAKTADNINQLFEEIAKRLPRPS 199
           + ++                 G+  A++ G + ++E SA T   +  +F+E  + +  P 
Sbjct: 123 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP 182

Query: 200 P 200
           P
Sbjct: 183 P 183

>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 =  128 bits (322), Expect = 2e-38
 Identities = 56/166 (33%), Positives = 88/166 (53%), Gaps = 7/166 (4%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++LLGD GVGKS ++ R+V  +FD     T+G  FL++ + +        +IWDTAGQE
Sbjct: 8   KVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFV-TMQIWDTAGQE 66

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGS----PDIVMALVGNKAD 150
           R+ +L   +YRG+   ++ + +    SF     W KE   +            ++GNK D
Sbjct: 67  RFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKID 126

Query: 151 LHEKREVPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEEIAKRL 195
           + E R+V  ++   +   NG   + ETSAK A N+   FEE  +R+
Sbjct: 127 ISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 171

>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 =  127 bits (318), Expect = 7e-38
 Identities = 51/164 (31%), Positives = 84/164 (51%), Gaps = 4/164 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV++G  GVGKS + ++ ++  F      T+  S+  Q +   D  T   +I DTAGQE
Sbjct: 5   KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVV--IDGETCLLDILDTAGQE 62

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHE 153
            Y+A+   Y R     + V+ I +  SF     + +++++   S D+ M LVGNK D   
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD-LA 121

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
            R V ++   + A   G+ +IETSAKT   +   F  + + + +
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 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 =  125 bits (314), Expect = 2e-37
 Identities = 58/165 (35%), Positives = 91/165 (55%), Gaps = 4/165 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV+LG  GVGKS + ++FV+G F      T+  S+  Q     D      EI DTAG E
Sbjct: 5   KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVE--VDCQQCMLEILDTAGTE 62

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVK-ELQKHGSPDIVMALVGNKADLHE 153
           ++ A+  LY +      +VY IT+  +FN  Q   +  L+   + D+ M LVGNK DL +
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122

Query: 154 KREVPAQDGIEYAEK-NGMFFIETSAKTADNINQLFEEIAKRLPR 197
           +R V  + G   A +     F+E+SAK+  N+N++F ++ +++ R
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQINR 167

>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 =  125 bits (313), Expect = 4e-37
 Identities = 58/163 (35%), Positives = 92/163 (56%), Gaps = 6/163 (3%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++++GDS VGK+C+  RF  G+F   ++ T+G  F  + + +     +K ++WDTAGQE
Sbjct: 4   KIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDG-ERIKIQLWDTAGQE 62

Query: 95  RYAAL-APLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLH 152
           R+       YYR     V VYD+T+  SF+    W++E ++H  + DI   LVGNK DL 
Sbjct: 63  RFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLR 122

Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTA---DNINQLFEEIA 192
              +VP     ++A+ + M   ETSAK     D++  +F  +A
Sbjct: 123 SAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLA 165

>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 =  125 bits (313), Expect = 4e-37
 Identities = 54/175 (30%), Positives = 84/175 (48%), Gaps = 15/175 (8%)

Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           +R KLV++GD   GK+C+++   + QF      TV  ++++      D   V+  +WDTA
Sbjct: 1   IRKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENYVADIE--VDGKQVELALWDTA 58

Query: 92  GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           G E Y  L PL Y    V ++ + I SPDS            KH  P++ + LVGNK DL
Sbjct: 59  GLEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDL 118

Query: 152 HEKREV------------PAQDGIEYAEKNGMF-FIETSAKTADNINQLFEEIAK 193
                               ++G + A + G F ++E SAKT D + ++FE   +
Sbjct: 119 RNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 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 =  123 bits (309), Expect = 2e-36
 Identities = 50/166 (30%), Positives = 87/166 (52%), Gaps = 3/166 (1%)

Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
             KLV++G  GVGKS + ++F++  F      T+  S+    I   D    + +I DTAG
Sbjct: 6   THKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSY--TKICSVDGIPARLDILDTAG 63

Query: 93  QERYAALAPLYYRGAAVAVVVYDITSPDSFNK-AQYWVKELQKHGSPDIVMALVGNKADL 151
           QE + A+   Y R     ++V+ I    SFN+  + + + L+     D  + LVGNKADL
Sbjct: 64  QEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADL 123

Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
             +R+VP  +   +   + + + E SAK   N+++ FE++ + + +
Sbjct: 124 ESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRK 169

>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 =  123 bits (309), Expect = 3e-36
 Identities = 43/186 (23%), Positives = 79/186 (42%), Gaps = 15/186 (8%)

Query: 26  SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKF 85
           +     L +K V++GD  VGK+C+++ +    F      TV   +               
Sbjct: 2   AHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY--AVSVTVGGKQYLL 59

Query: 86  EIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALV 145
            ++DTAGQE Y  L PL Y    V ++ + + +P SF   +       K  +P++   L+
Sbjct: 60  GLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLI 119

Query: 146 GNKADLHEKRE------------VPAQDGIEYAEKNG-MFFIETSAKTADNINQLFEEIA 192
           G + DL +  +            +  + G + A++ G   ++E SA T   +  +F+E  
Sbjct: 120 GTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAI 179

Query: 193 KRLPRP 198
             +  P
Sbjct: 180 IAILTP 185

>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 =  123 bits (308), Expect = 3e-36
 Identities = 49/166 (29%), Positives = 91/166 (54%), Gaps = 3/166 (1%)

Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
           + +LV++G  GVGKS + ++F++  F      T+  S+  Q +   D    + +I DTAG
Sbjct: 5   KYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCV--IDDRAARLDILDTAG 62

Query: 93  QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADL 151
           QE + A+   Y R     ++V+ +T   SF +   + ++ L+     +  M L+GNKADL
Sbjct: 63  QEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADL 122

Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
             +R+V  ++G + A +  + ++E SAK   N++Q F E+ + + +
Sbjct: 123 DHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRK 168

>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 =  122 bits (307), Expect = 4e-36
 Identities = 57/171 (33%), Positives = 94/171 (54%), Gaps = 7/171 (4%)

Query: 31  NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           N+ +K+++LGDSGVGK+ ++ R+V  ++    K T+GA FL++ + +        ++WDT
Sbjct: 1   NI-LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDT 59

Query: 91  AGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH----GSPDIVMALVG 146
           AGQER+ +L   +YRGA   V+VYD+T+  SF   + W  E   H            ++G
Sbjct: 60  AGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILG 119

Query: 147 NKADLHEKREVPAQDGIEY--AEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           NK D  E +++ ++   +        +    TSAK A N++  FEEIA+  
Sbjct: 120 NKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSA 170

>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 =  122 bits (307), Expect = 4e-36
 Identities = 43/176 (24%), Positives = 80/176 (45%), Gaps = 16/176 (9%)

Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           ++ K+V++GDS  GK+ ++  F +  F      TV  ++ +      D+  ++  +WDT+
Sbjct: 1   VKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFE--IDTQRIELSLWDTS 58

Query: 92  GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           G   Y  + PL Y  +   ++ +DI+ P++ +      K   +   P+  M LVG K+DL
Sbjct: 59  GSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDL 118

Query: 152 ------------HEKREVPAQDGIEYAEKNG-MFFIETSAKTADN-INQLFEEIAK 193
                       H +  V    G   A++ G   +IE SA  ++N +  +F     
Sbjct: 119 RTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATL 174

>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 =  120 bits (302), Expect = 3e-35
 Identities = 61/167 (36%), Positives = 97/167 (58%), Gaps = 5/167 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K+++LGDSGVGK+ ++ ++V  +F    K T+GA FL++ + + D   V  +IWDTAGQE
Sbjct: 4   KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDD-RLVTMQIWDTAGQE 62

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSP----DIVMALVGNKAD 150
           R+ +L   +YRGA   V+V+D+T+P++F     W  E     SP    +    ++GNK D
Sbjct: 63  RFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKID 122

Query: 151 LHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           L  ++    +       KN + + ETSAK A N+ Q F+ IA+   +
Sbjct: 123 LENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALK 169

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score =  118 bits (296), Expect = 1e-34
 Identities = 27/165 (16%), Positives = 66/165 (40%), Gaps = 10/165 (6%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           +++++G    GK+ I+ +   G+   T        F  +T+  ++   + F +WD  GQ+
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEIVTT---IPTIGFNVETVEYKN---ISFTVWDVGGQD 55

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPD----IVMALVGNKAD 150
           +   L   Y++     + V D    +  N+A+  +  +           +V A   +  +
Sbjct: 56  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 115

Query: 151 LHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
                E+  + G+        +   T A + D + +  + ++ +L
Sbjct: 116 AMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 160

>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 =  117 bits (294), Expect = 2e-34
 Identities = 54/163 (33%), Positives = 84/163 (51%), Gaps = 4/163 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLV++GD GVGKS + ++F +  F P    T+  S+L  T    D+     ++ DTAGQE
Sbjct: 6   KLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSYLKHTE--IDNQWAILDVLDTAGQE 63

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVK-ELQKHGSPDIVMALVGNKADLHE 153
            ++A+   Y R     ++VY +T   SF     + +  L+        M LV NK DL  
Sbjct: 64  EFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMH 123

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTAD-NINQLFEEIAKRL 195
            R+V    G E A K  + +IETSAK    N+++ F ++ + +
Sbjct: 124 LRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 166

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  117 bits (294), Expect = 2e-34
 Identities = 54/164 (32%), Positives = 90/164 (54%), Gaps = 2/164 (1%)

Query: 32  LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTA 91
           + +K+V++G+  VGKS ++ R+ +G F    K T+G  FL + I + D   V+  +WDTA
Sbjct: 1   VAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVND-EDVRLMLWDTA 59

Query: 92  GQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADL 151
           GQE + A+   YYRGA   V+V+  T  +SF       +E       DI  ALV NK DL
Sbjct: 60  GQEEFDAITKAYYRGAQACVLVFSTTDRESFEA-ISSWREKVVAEVGDIPTALVQNKIDL 118

Query: 152 HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            +   +  ++    A++  + F  TS K   N++++F+ +A++ 
Sbjct: 119 LDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKH 162

>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 =  115 bits (288), Expect = 2e-33
 Identities = 55/166 (33%), Positives = 82/166 (49%), Gaps = 5/166 (3%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           VKL + G +GVGKS +V+RF+  +F      T+ +++  Q     D   V  EI DTAGQ
Sbjct: 3   VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQAT--IDDEVVSMEILDTAGQ 60

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDS-FNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
           E        + R     V+VYDIT   S            +     ++ + LVGNKADL 
Sbjct: 61  EDTIQ-REGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLD 119

Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTAD-NINQLFEEIAKRLPR 197
             R+V  ++G + A +    F E SA T + NI ++F E+ + + R
Sbjct: 120 HSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRR 165

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  113 bits (283), Expect = 1e-32
 Identities = 52/169 (30%), Positives = 81/169 (47%), Gaps = 4/169 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           ++ + G  GVGKS +VLRFV+G F  +   TV  ++        D +    +I DT G  
Sbjct: 4   RVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVIS--CDKSICTLQITDTTGSH 61

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKEL--QKHGSPDIVMALVGNKADLH 152
           ++ A+  L        ++VY ITS  S  + +   +++   K     I + LVGNK D  
Sbjct: 62  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 121

Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSPS 201
             REV + +    A      F+ETSAK   N+ +LF+E+     R + S
Sbjct: 122 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRRTVS 170

>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 =  113 bits (282), Expect = 2e-32
 Identities = 36/166 (21%), Positives = 69/166 (41%), Gaps = 10/166 (6%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +++++LG    GK+ I+ +   GQ   T+  TVG +  + T        VKF +WD  GQ
Sbjct: 13  MRILMLGLDAAGKTTILYKLKLGQS-VTTIPTVGFNVETVTY-----KNVKFNVWDVGGQ 66

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLH 152
           ++   L   YY G    + V D    D  ++A+  +  +       D ++ +  NK DL 
Sbjct: 67  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 126

Query: 153 EKR---EVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           +     E+  + G+        +   + A + D + +    +    
Sbjct: 127 DAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY 172

>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 =  110 bits (274), Expect = 4e-31
 Identities = 35/170 (20%), Positives = 65/170 (38%), Gaps = 10/170 (5%)

Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
            N  +++++LG  G GK+ I+ R   G+   T+K T+G +  + +        +K  +WD
Sbjct: 14  SNKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFNVETLSY-----KNLKLNVWD 67

Query: 90  TAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMAL-VGNK 148
             GQ         YY   A  + V D T  D  + A   +  + +         L   NK
Sbjct: 68  LGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANK 127

Query: 149 ADL---HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            D        EV  +  +   +      + +SA   + I +  + +   +
Sbjct: 128 QDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVI 177

>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 =  107 bits (266), Expect = 4e-30
 Identities = 48/162 (29%), Positives = 84/162 (51%), Gaps = 4/162 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KLVL+GD G GK+  V R + G+F+     T+G           +   +KF +WDTAGQE
Sbjct: 5   KLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVF-HTNRGPIKFNVWDTAGQE 63

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK 154
           ++  L   YY  A  A++++D+TS  ++     W ++L +    +I + L GNK D+ ++
Sbjct: 64  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV-CENIPIVLCGNKVDIKDR 122

Query: 155 REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           +         +  K  + + + SAK+  N  + F  +A++L 
Sbjct: 123 KVKAKSI--VFHRKKNLQYYDISAKSNYNFEKPFLWLARKLI 162

>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 =  106 bits (265), Expect = 5e-30
 Identities = 50/169 (29%), Positives = 78/169 (46%), Gaps = 3/169 (1%)

Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWD 89
           ++   K+ +LG   VGKS + ++FV GQF  +   T+  +F        +      ++ D
Sbjct: 1   QSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLIT--VNGQEYHLQLVD 58

Query: 90  TAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNK 148
           TAGQ+ Y+     Y       ++VY +TS  SF   +    K L   G   I + LVGNK
Sbjct: 59  TAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNK 118

Query: 149 ADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
            DLH +R +  ++G   AE     F+E+SAK       +F  I     +
Sbjct: 119 KDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEK 167

>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 =  105 bits (262), Expect = 2e-29
 Identities = 48/162 (29%), Positives = 70/162 (43%), Gaps = 4/162 (2%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           K++LLG  GVGKS +   F   +  P ++        S      D       ++D   Q+
Sbjct: 3   KVLLLGAPGVGKSALARIFGGVEDGPEAEAAGHTYDRSIV---VDGEEASLMVYDIWEQD 59

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMAL-VGNKADLHE 153
               L           V+VY +T   SF KA     +L++    D V  + VGNK+DL  
Sbjct: 60  GGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVR 119

Query: 154 KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            REV   +G   A      FIETSA    N+  LFE + +++
Sbjct: 120 SREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 161

>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 =  105 bits (262), Expect = 2e-29
 Identities = 33/167 (19%), Positives = 59/167 (35%), Gaps = 10/167 (5%)

Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
             K++++G    GK+ I+ +F   +   TS                     +F +WD  G
Sbjct: 15  EHKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNVEE------IVINNTRFLMWDIGG 68

Query: 93  QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMAL-VGNKADL 151
           QE   +    YY      +VV D T  +  +  +  + ++  H        L   NK D+
Sbjct: 69  QESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDV 128

Query: 152 HEK---REVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
            E     E+     +   + +        A T + + Q  E +  RL
Sbjct: 129 KECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL 175

>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 =  104 bits (259), Expect = 4e-29
 Identities = 46/167 (27%), Positives = 73/167 (43%), Gaps = 2/167 (1%)

Query: 31  NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDT 90
           N   ++VL+G+ GVGKS +   F        S   V      +   + D  +    + D 
Sbjct: 1   NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDM 60

Query: 91  A-GQERYAALAPLYYRGAAVAVVVYDITSPDSF-NKAQYWVKELQKHGSPDIVMALVGNK 148
              +     L     +     ++VY IT   SF   ++  ++  +   + DI + LVGNK
Sbjct: 61  WENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 120

Query: 149 ADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           +DL   REV   +G   A      FIETSA    N+ +LFE I +++
Sbjct: 121 SDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 167

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  101 bits (252), Expect = 5e-28
 Identities = 34/165 (20%), Positives = 68/165 (41%), Gaps = 8/165 (4%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           ++L +LGD+  GKS ++ RF+ G +    K T    +  + +   D  T    I + AG 
Sbjct: 6   LRLGVLGDARSGKSSLIHRFLTGSYQVLEK-TESEQYKKEML--VDGQTHLVLIREEAGA 62

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE 153
                    +         + D  S  + ++    +  L+  G   + +ALVG +  +  
Sbjct: 63  PDAK--FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISA 120

Query: 154 K--REVPAQDGIEYA-EKNGMFFIETSAKTADNINQLFEEIAKRL 195
              R V          +     + ET A    N++++F+E+A+++
Sbjct: 121 SSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKV 165

>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 = 99.3 bits (246), Expect = 5e-27
 Identities = 30/171 (17%), Positives = 57/171 (33%), Gaps = 10/171 (5%)

Query: 29  AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIW 88
           A +  V+++LLG    GK+ ++ +         +  T G +  S           K  +W
Sbjct: 12  APDQEVRILLLGLDNAGKTTLLKQLASEDISHITP-TQGFNIKSVQSQ-----GFKLNVW 65

Query: 89  DTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGN 147
           D  GQ +       Y+    + + V D      F +    + EL +      + + +  N
Sbjct: 66  DIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFAN 125

Query: 148 KADLHEKR---EVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           K DL       E+     +             SA T + +      + K +
Sbjct: 126 KQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 96.7 bits (239), Expect = 4e-26
 Identities = 37/166 (22%), Positives = 68/166 (40%), Gaps = 9/166 (5%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           ++L L+G    GK+  V     GQF+     TVG +    T        V  ++WD  GQ
Sbjct: 3   MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKITK-----GNVTIKLWDIGGQ 57

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSP-DIVMALVGNKADLH 152
            R+ ++   Y RG +  V + D    +    ++  +  L        I + ++GNK DL 
Sbjct: 58  PRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLP 117

Query: 153 E---KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
               ++E+  +  +   +   +     S K  DNI+   + + +  
Sbjct: 118 GALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHS 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 = 95.5 bits (236), Expect = 1e-25
 Identities = 29/166 (17%), Positives = 61/166 (36%), Gaps = 10/166 (6%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +++++LG  G GK+ I+ R   G+   T         +   +       +KF++WD  G 
Sbjct: 6   MRILILGLDGAGKTTILYRLQVGEVVTTI------PTIGFNVETVTYKNLKFQVWDLGGL 59

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVM-ALVGNKADLH 152
                    YY      + V D    D    ++  +  + +       +  +  NK D+ 
Sbjct: 60  TSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDME 119

Query: 153 EKR---EVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           +     E+    G+   +       +TSA     +++  E + + L
Sbjct: 120 QAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETL 165

>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 = 94.6 bits (234), Expect = 5e-25
 Identities = 29/201 (14%), Positives = 57/201 (28%), Gaps = 44/201 (21%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           +KL+LLG    GKS  + +            T G       +      +V F + D  GQ
Sbjct: 3   LKLLLLGTGESGKSTFIKQMRIIHGSGVP--TTGIIEYPFDL-----QSVIFRMVDVGGQ 55

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQY-----------WVKELQKHGSPDIVM 142
                     +      + +  ++  D                  +   +      +  +
Sbjct: 56  RSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSV 115

Query: 143 ALVGNKADLHEKREVPAQDGIEYAEKNGM--------------------------FFIET 176
            L  NK DL E++ + +     + E +G                           +   T
Sbjct: 116 ILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFT 175

Query: 177 SAKTADNINQLFEEIAKRLPR 197
            A   +NI  +F  +   + +
Sbjct: 176 CATDTENIRFVFAAVKDTILQ 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 = 93.2 bits (230), Expect = 7e-25
 Identities = 25/166 (15%), Positives = 55/166 (33%), Gaps = 10/166 (6%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           ++L++LG    GK+ I+ +F     D     T+  +         +    K  IWD  GQ
Sbjct: 3   LRLLMLGLDNAGKTTILKKFNGEDVD-----TISPTLGFNIKT-LEHRGFKLNIWDVGGQ 56

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH----GSPDIVMALVGNKA 149
           +   +    Y+      + V D          Q  ++ L       G+  ++ A   +  
Sbjct: 57  KSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLP 116

Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
                  +     ++    +       SA T +++    + +   +
Sbjct: 117 GALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDI 162

>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 = 86.3 bits (212), Expect = 3e-22
 Identities = 27/170 (15%), Positives = 54/170 (31%), Gaps = 17/170 (10%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           KL+ LG    GK+ ++      +       T   +     I       +KF  +D  G  
Sbjct: 2   KLLFLGLDNAGKTTLLHMLKNDRLATLQ-PTWHPTSEELAI-----GNIKFTTFDLGGHI 55

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSP-DIVMALVGNKADLHE 153
           +   L   Y+      V + D   P+ F++A+  +  L       D+   ++GNK D   
Sbjct: 56  QARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN 115

Query: 154 KREV----------PAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
                                   +  +     S    +   + F+ +++
Sbjct: 116 AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQ 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 = 83.6 bits (205), Expect = 6e-21
 Identities = 22/178 (12%), Positives = 51/178 (28%), Gaps = 22/178 (12%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
            KLV LG    GK+ ++      +                T        + F  +D  G 
Sbjct: 14  GKLVFLGLDNAGKTTLLHMLKDDRLGQHVPTLH------PTSEELTIAGMTFTTFDLGGH 67

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGS-PDIVMALVGNKADL- 151
            +   +   Y       V + D    +   +++  +  L    +  ++ + ++GNK D  
Sbjct: 68  IQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRP 127

Query: 152 --------------HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
                         + +        ++      +     S        + F  +A+ +
Sbjct: 128 EAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI 185

>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 = 82.7 bits (203), Expect = 2e-20
 Identities = 33/197 (16%), Positives = 53/197 (26%), Gaps = 47/197 (23%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           VKL+LLG    GKS IV +              G               + F+++D  GQ
Sbjct: 3   VKLLLLGAGESGKSTIVKQMKIIHE-----AGTGIVETHF-----TFKDLHFKMFDVGGQ 52

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQY-----------WVKELQKHGSPDIVM 142
                     + G    +    ++  D                  +          D  +
Sbjct: 53  RSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSI 112

Query: 143 ALVGNKADLHEKREVPAQDGIEYAEKNGM--------------------------FFIET 176
            L  NK DL E++   +   I Y E  G                           +   T
Sbjct: 113 ILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFT 172

Query: 177 SAKTADNINQLFEEIAK 193
            A    N+  +F+ +  
Sbjct: 173 CATDTKNVQFVFDAVTD 189

>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 = 81.9 bits (201), Expect = 4e-20
 Identities = 26/175 (14%), Positives = 49/175 (28%), Gaps = 21/175 (12%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ 93
           VK++LLG    GKS  + +    +       T G       I       V F++ D  GQ
Sbjct: 3   VKILLLGAGESGKSTFLKQM---RIIHGQDPTKGIHEYDFEI-----KNVPFKMVDVGGQ 54

Query: 94  ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKE-----------LQKHGSPDIVM 142
                     +      + +   +  D                      +      ++ +
Sbjct: 55  RSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSI 114

Query: 143 ALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
            L  NK DL E++         + E  G        +    + + F    +   +
Sbjct: 115 ILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQ--KFLVECFRGKRRDQQQ 167

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]} Length = 221

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 80.6 bits (198), Expect = 2e-19
 Identities = 30/171 (17%), Positives = 48/171 (28%), Gaps = 21/171 (12%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
           +L+LLG    GKS IV +            T G         +     V F ++D  GQ 
Sbjct: 8   RLLLLGAGESGKSTIVKQMRILHVVL----TSG--IFETKFQVDK---VNFHMFDVGGQR 58

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGS-----------PDIVMA 143
                    +      + V   +S +   +       LQ+  +             I + 
Sbjct: 59  DERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVI 118

Query: 144 LVGNKADL-HEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
           L  NK DL  EK         +Y  +   +     A      +        
Sbjct: 119 LFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKY 169

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]} Length = 161

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

 Score = 61.7 bits (148), Expect = 7e-13
 Identities = 27/168 (16%), Positives = 56/168 (33%), Gaps = 14/168 (8%)

Query: 34  VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKV------TVGASFLSQTIALQDSTTVKFEI 87
           +K+V+ G    GKS ++      +    + +       +        + L    T     
Sbjct: 2   MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLRE 61

Query: 88  WDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGN 147
                +      A      A   + + D T+ D+ +       E        + + +V N
Sbjct: 62  ASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDP-AEIWPEFIARLPAKLPITVVRN 120

Query: 148 KADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRL 195
           KAD+  +           +E NG   I  SA+T + ++ L   + + +
Sbjct: 121 KADITGETL-------GMSEVNGHALIRLSARTGEGVDVLRNHLKQSM 161

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 62.3 bits (150), Expect = 8e-13
 Identities = 23/160 (14%), Positives = 48/160 (30%), Gaps = 8/160 (5%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE 94
            ++ +G    GK+ + +R + GQ+  T   ++  S     +      ++           
Sbjct: 2   AVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKVNNNRGNSLTLIDLPGHESL 60

Query: 95  RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQ----YWVKELQKHGSPDIVMALVGNKAD 150
           R+      +   A   V V D  +     K      Y V            + +  NK D
Sbjct: 61  RFQL-LDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQD 119

Query: 151 LHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE 190
           +   +   A+   +  EK       T +     ++     
Sbjct: 120 IAMAK--SAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTA 157

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 209

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 55.4 bits (132), Expect = 2e-10
 Identities = 20/170 (11%), Positives = 43/170 (25%), Gaps = 14/170 (8%)

Query: 36  LVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER 95
           +++ G    GK+ ++         PT  V       +        T V F        + 
Sbjct: 6   IIIAGPQNSGKTSLLTLLTTDSVRPT--VVSQEPLSAADYDGSGVTLVDFPGHVKLRYKL 63

Query: 96  YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH----GSPDIVMALVGNKADL 151
              L         +  +V     P        ++ ++           I + +  NK++L
Sbjct: 64  SDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSEL 123

Query: 152 HEKREVPAQ--------DGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
              R               +    K  +  +E      D      + +  
Sbjct: 124 FTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEEDYAENTLDVLQS 173

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 178

class: 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]

 Score = 52.0 bits (123), Expect = 3e-09
 Identities = 28/164 (17%), Positives = 50/164 (30%), Gaps = 6/164 (3%)

Query: 37  VLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIAL----QDSTTVKFEIWDTAG 92
            ++G   VGKS ++   +  +  P S          + I      Q        +     
Sbjct: 9   AIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMD 68

Query: 93  QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH 152
                    +Y   A V  VV+ +            V    K     + + LVGNK D  
Sbjct: 69  ALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAA 128

Query: 153 EKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           +  E   +   E   +     +  SA     + +L  ++   +P
Sbjct: 129 KYPEEAMKAYHELLPEAEPRML--SALDERQVAELKADLLALMP 170

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} 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: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 49.8 bits (117), Expect = 2e-08
 Identities = 26/167 (15%), Positives = 50/167 (29%), Gaps = 13/167 (7%)

Query: 37  VLLGDSGVGKSCIVLRFVRGQFDPTSKV-------TVGASFLSQTIALQDSTTVKFEIWD 89
           +++G   VGKS +  + V+ +                              T   F+   
Sbjct: 4   LIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQ 63

Query: 90  TAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKA 149
               ++   +     R A + + V D     +           +      +V     NKA
Sbjct: 64  DIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVDTILVA----NKA 119

Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           +   + E   +   E         I  SA+   N++ + E I K+L 
Sbjct: 120 ENLREFEREVKP--ELYSLGFGEPIPVSAEHNINLDTMLETIIKKLE 164

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]} Length = 180

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

 Score = 48.5 bits (114), Expect = 5e-08
 Identities = 27/171 (15%), Positives = 50/171 (29%), Gaps = 12/171 (7%)

Query: 38  LLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG----- 92
           L+G    GKS ++    R             +       ++ S   +F + D  G     
Sbjct: 6   LVGYPNAGKSSLLAAMTRAHPKIAP--YPFTTLSPNLGVVEVSEEERFTLADIPGIIEGA 63

Query: 93  --QERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMAL-VGNKA 149
              +        +     V + V D              +      +     +L   NK 
Sbjct: 64  SEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKV 123

Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLPRPSP 200
           DL E+  V  +   +   + G+  +  SA T   +  L E +   +    P
Sbjct: 124 DLLEEEAV--KALADALAREGLAVLPVSALTGAGLPALKEALHALVRSTPP 172

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]} Length = 400

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 49.8 bits (118), Expect = 6e-08
 Identities = 24/207 (11%), Positives = 50/207 (24%), Gaps = 32/207 (15%)

Query: 19  NNLENAGSS------DAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLS 72
            N++   S+      +  +  + + + G++G GKS  +        +       G   ++
Sbjct: 36  GNIQLTNSAISDALKEIDSSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVT 95

Query: 73  QTIALQDST-TVKFEIWDTAGQERYAALAPLYYR--GAAVAVVVYDITSPDSFNKAQYWV 129
                           WD  G          Y              I++           
Sbjct: 96  MERHPYKHPNIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISATRFKKNDIDIA 155

Query: 130 KELQKHGSPDIVMALVGNKADLHEKREVPA---------------QDGIEYAEKNGM--- 171
           K +            V  K D     E                   + +    +NG+   
Sbjct: 156 KAISMMKKE---FYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEP 212

Query: 172 --FFIETSAKTADNINQLFEEIAKRLP 196
             F +        +   L +++   LP
Sbjct: 213 PIFLLSNKNVCHYDFPVLMDKLISDLP 239

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]} 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: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

 Score = 47.4 bits (111), Expect = 1e-07
 Identities = 32/182 (17%), Positives = 51/182 (28%), Gaps = 25/182 (13%)

Query: 37  VLLGDSGVGKSCIVLRFVR------------------GQFDPTSKVTVGASFLSQTIALQ 78
           +  G S VGKS ++ R                        +       G  F+       
Sbjct: 4   IFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKIIEIEWKNHKIIDMPGFGFMMGLPKEV 63

Query: 79  DSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSP 138
                   +       +   +A L   G A   ++              + + L++   P
Sbjct: 64  QERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIP 123

Query: 139 DIVMALVGNKADLHEKREVPAQDGIEYAEKNGMF----FIETSAKTADNINQLFEEIAKR 194
            IV     NK D  +  +       E  E         FI  SAK  DNI +L   I + 
Sbjct: 124 TIV---AVNKLDKIKNVQEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEV 180

Query: 195 LP 196
           + 
Sbjct: 181 IR 182

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]} 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: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 46.6 bits (109), Expect = 2e-07
 Identities = 27/167 (16%), Positives = 64/167 (38%), Gaps = 11/167 (6%)

Query: 37  VLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY 96
            ++G   VGKS ++ + +  +   TS+     +   + + +      +    DT G    
Sbjct: 9   AIVGRPNVGKSTLLNKLLGQKISITSRK--AQTTRHRIVGIHTEGAYQAIYVDTPGLHME 66

Query: 97  AALA-------PLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKA 149
              A               V +V++ +         +  + +L++  +P I+   V    
Sbjct: 67  EKRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLNKLREGKAPVILA--VNKVD 124

Query: 150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
           ++ EK ++        ++ N +  +  SA+T  N++ +   + K LP
Sbjct: 125 NVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHLP 171

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} 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: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 46.2 bits (108), Expect = 4e-07
 Identities = 30/174 (17%), Positives = 57/174 (32%), Gaps = 15/174 (8%)

Query: 33  RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAG 92
            +K+ ++G   VGKS +    +  +    S +              D    K+   DTAG
Sbjct: 8   AIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDG--RKYVFVDTAG 65

Query: 93  QERYAALAP-----------LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV 141
             R + + P           +     A  VV+    +     + Q     +++ G   +V
Sbjct: 66  LRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRMAGLMERRGRASVV 125

Query: 142 MALVGNKADLHEKREVPAQDGIEYAEKNGMF--FIETSAKTADNINQLFEEIAK 193
           +    +     EKR                +   I TSA    NI+++ + +  
Sbjct: 126 VFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNL 179

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]} 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: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 45.0 bits (105), Expect = 7e-07
 Identities = 29/167 (17%), Positives = 56/167 (33%), Gaps = 18/167 (10%)

Query: 35  KLVLLGDSGVGKSCIVLRFVRG--------QFDPTSKVTVGASFLSQTIALQDSTTVKFE 86
           ++V++G   VGKS ++ R +                 ++           + D+  V+ E
Sbjct: 2   RMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVRSE 61

Query: 87  IWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVG 146
             D   +             A + + V D +SP      +   +   K         +V 
Sbjct: 62  TND-LVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILERIKNKR------YLVVI 114

Query: 147 NKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK 193
           NK D+ EK        I+         ++ SA   + + +L E I +
Sbjct: 115 NKVDVVEKINEEE---IKNKLGTDRHMVKISALKGEGLEKLEESIYR 158

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]} Length = 188

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

 Score = 45.5 bits (106), Expect = 8e-07
 Identities = 21/172 (12%), Positives = 51/172 (29%), Gaps = 9/172 (5%)

Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKF---- 85
            +  +++   G S  GKS  +      +    +  T G + L     + D   +      
Sbjct: 13  SDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGY 72

Query: 86  ----EIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV 141
                  +   + + A    L  R +   +VV         +  Q  ++         +V
Sbjct: 73  GYAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLV 132

Query: 142 MALVGNKADLHEKREVPAQDGIEYAEKNGMF-FIETSAKTADNINQLFEEIA 192
           +    +K     ++             NG       S+     +++L +++ 
Sbjct: 133 LLTKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLD 184

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]} Length = 205

class: 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]

 Score = 45.3 bits (106), Expect = 9e-07
 Identities = 26/120 (21%), Positives = 41/120 (34%), Gaps = 7/120 (5%)

Query: 84  KFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMA 143
           +    D  G E   A           A++V     P    + +     L   G  ++++ 
Sbjct: 87  RISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLII- 145

Query: 144 LVGNKADLHEKREVPAQDGIEYAEKNGMF-----FIETSAKTADNINQLFEEIAKRLPRP 198
            V NK D+  K E  +Q         G +      I  SA    NI+ L E I + +  P
Sbjct: 146 -VQNKVDVVSKEEALSQYRQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYIKTP 204

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]} 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: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

 Score = 40.1 bits (92), Expect = 5e-05
 Identities = 24/176 (13%), Positives = 52/176 (29%), Gaps = 8/176 (4%)

Query: 30  KNLRVKLVLLGDSGVGKSCIVLRFVRGQ----FDPTSKVTVGASFLSQTIALQDSTTVKF 85
           +    ++ L G S VGKS  +   +  +           T   +F      L       +
Sbjct: 20  EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDELHFVDVPGY 79

Query: 86  EIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MAL 144
                +  ER A    +         +   +   D  +       ++ +      + + +
Sbjct: 80  GFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIV 139

Query: 145 VGNKADLHEKREVPAQDGI---EYAEKNGMFFIETSAKTADNINQLFEEIAKRLPR 197
           +  KAD   K +      +             I  S++T    ++ +  I K + R
Sbjct: 140 IATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMINR 195

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]} 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: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

 Score = 39.1 bits (90), Expect = 9e-05
 Identities = 31/176 (17%), Positives = 58/176 (32%), Gaps = 26/176 (14%)

Query: 38  LLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTV-----KFEIWDTAG 92
           L+G   VGKS ++           +K  + A +   T+              F + D  G
Sbjct: 6   LVGFPSVGKSTLLSVVSS------AKPKI-ADYHFTTLVPNLGMVETDDGRSFVMADLPG 58

Query: 93  QERYAAL-------APLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSP-----DI 140
               A            +     V V V D++  +  +    ++   Q+         + 
Sbjct: 59  LIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTER 118

Query: 141 VMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAKRLP 196
              +V NK D+ E  E    +  +    +       SA T + + +L  E+A +L 
Sbjct: 119 PQIIVANKMDMPEAAEN--LEAFKEKLTDDYPVFPISAVTREGLRELLFEVANQLE 172

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]} Length = 257

class: 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]

 Score = 37.5 bits (86), Expect = 5e-04
 Identities = 30/197 (15%), Positives = 52/197 (26%), Gaps = 13/197 (6%)

Query: 14  QSGGLNNLENAGSSDAKNLRVKLVLLGDSGVGKSCIV------LRFVRGQFDPTSKVTVG 67
           Q+  L  L N    D  +L +  +++G  GVGKS  V             F       V 
Sbjct: 15  QTKLLELLGNLKQEDVNSLTI--LVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVM 72

Query: 68  ASFLSQTIALQDSTTVKFEIWDTAGQERYA-ALAPLYYRGAAVAVVVYDITSPDSFNKAQ 126
            S       L    T                  + L  +   V + V  + +    N  +
Sbjct: 73  VSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDK 132

Query: 127 YWVKELQKHGSPDIV--MALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNI 184
              K +       I     +    A       +P  +      +  +  + + A      
Sbjct: 133 LVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSKRSEALLQVVRSGAS--LKK 190

Query: 185 NQLFEEIAKRLPRPSPS 201
           +    +I   L   S  
Sbjct: 191 DAQASDIPVVLIENSGR 207

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]} 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: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

 Score = 36.5 bits (83), Expect = 9e-04
 Identities = 8/24 (33%), Positives = 11/24 (45%)

Query: 173 FIETSAKTADNINQLFEEIAKRLP 196
            I  SA    NI+ L + I   +P
Sbjct: 171 IIPISALHGANIDVLVKAIEDFIP 194

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]} 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: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

 Score = 35.1 bits (79), Expect = 0.003
 Identities = 8/26 (30%), Positives = 11/26 (42%)

Query: 173 FIETSAKTADNINQLFEEIAKRLPRP 198
            I  SAKT   +++L   I   L   
Sbjct: 151 IIPISAKTGFGVDELKNLIITTLNNA 176

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	202
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	100.0
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	100.0
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	100.0
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	100.0
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	100.0
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	100.0
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	100.0
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	100.0
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.97
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.97
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.96
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.96
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.95
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.94
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.93
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.93
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.92
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.91
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.91
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.9
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.9
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.9
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.89
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.89
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.89
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.88
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.88
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.87
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.87
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.87
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.86
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.86
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.86
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.86
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.84
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.84
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.82
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.8
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.76
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.75
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.73
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.72
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.71
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.69
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.69
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.69
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.6
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.59
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.53
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.42
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.33
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.32
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	99.2
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	99.11
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	99.1
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	99.09
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.93
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.59
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.48
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.44
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.41
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.28
d1okkd2	207	GTPase domain of the signal recognition particle r	98.19
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.17
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.14
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.14
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.06
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.06
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.05
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.02
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	98.0
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.71
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.65
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.55
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.54
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.53
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.46
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.44
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.42
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.41
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.39
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.37
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.36
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.35
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.32
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.31
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.31
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.26
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.16
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.15
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.14
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.14
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.08
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.07
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.04
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.02
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.01
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.99
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.99
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.96
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.96
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.92
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.92
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.91
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.87
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.86
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.84
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.84
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.83
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.83
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.82
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.8
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.79
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.78
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.77
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.76
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.72
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.72
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.71
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.7
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.68
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.67
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.65
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.64
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.63
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.63
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.6
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.6
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.57
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.57
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.55
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.54
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.52
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.52
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.52
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.51
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.48
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.41
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.41
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.4
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.37
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.35
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.34
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.33
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.32
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.29
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.29
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.26
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.2
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.14
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.12
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.1
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.09
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.04
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.02
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.0
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.98
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.97
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	95.9
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	95.89
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.88
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.82
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	95.77
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.64
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.6
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	95.6
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.56
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.41
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.39
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.33
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.31
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.31
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.23
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.15
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.13
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	94.98
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	94.98
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.96
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.91
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	94.87
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.86
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.84
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.84
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	94.77
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.67
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	94.62
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	94.54
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	94.43
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	94.42
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	94.36
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	94.28
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	94.27
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.26
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.21
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.19
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.17
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	94.1
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	94.07
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	94.03
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	93.99
d1tuea_	205	Replication protein E1 helicase domain {Human papi	93.79
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	93.62
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.62
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.52
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	93.33
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	93.28
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.25
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	93.23
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.67
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	92.03
d7mdha1	175	Malate dehydrogenase {Sorghum (Sorghum vulgare), c	91.85
d1xpua3	289	Transcription termination factor Rho, ATPase domai	91.63
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	91.13
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	90.58
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	89.74
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	89.52
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	88.77
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	88.26
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	87.86
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	87.3
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	86.97
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	86.86
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	85.45
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	84.68
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	84.39
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	83.91
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	83.9
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	83.86
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	83.53
d5mdha1	154	Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 982	83.32
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	83.05
d1y7ta1	154	Malate dehydrogenase {Thermus thermophilus [TaxId:	82.97
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	82.86
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	82.81
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	82.33
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	81.39
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	80.69

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=1.2e-36  Score=213.88  Aligned_cols=167  Identities=36%  Similarity=0.641  Sum_probs=150.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++.+||+|+|++|||||||+++|.++.+...+.++.+.+.....+... ...+.+.+||+||++++..++..+++.+|++
T Consensus         3 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~   81 (169)
T d3raba_           3 DYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRN-DKRIKLQIWDTAGQERYRTITTAYYRGAMGF   81 (169)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEET-TEEEEEEEEEECCSGGGHHHHHTTTTTCCEE
T ss_pred             CeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEee-cceEEEEEEECCCchhhHHHHHHHHhcCCEE
Confidence            467999999999999999999999999888888887777766666654 4448999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |+|||.+++.++..+..|+..+........|+++|+||+|+.+...+..+++..+++.+++++++|||++|.|++++|++
T Consensus        82 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~  161 (169)
T d3raba_          82 ILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFER  161 (169)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccccccccchhhhHHHHHHcCCEEEEecCCCCcCHHHHHHH
Confidence            99999999999999999998888777788999999999999888888889999999999999999999999999999999


Q ss_pred             HHHHcCCC
Q 028884          191 IAKRLPRP  198 (202)
Q Consensus       191 l~~~i~~~  198 (202)
                      |++.+.++
T Consensus       162 l~~~i~ek  169 (169)
T d3raba_         162 LVDVICEK  169 (169)
T ss_dssp             HHHHHHTC
T ss_pred             HHHHHhhC
Confidence            99988664

>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=2.3e-36  Score=212.02  Aligned_cols=165  Identities=44%  Similarity=0.754  Sum_probs=143.8

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.+||+|+|.+|||||||+++|..+.+...+.++............. +..+.+.+||++|.+.+..++..+++.+|++|
T Consensus         2 y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   80 (167)
T d1z08a1           2 YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIG-GKRVNLAIWDTAGQERFHALGPIYYRDSNGAI   80 (167)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESS-SCEEEEEEEECCCC-------CCSSTTCSEEE
T ss_pred             ceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccC-CccceeeeeccCCcceecccchhhccCCceeE
Confidence            57899999999999999999999999988888888877777666654 44599999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      +|||+++++||+.+..|+..+........|+++|+||+|+...+.+..+++..+++++++++++|||++|.|++++|++|
T Consensus        81 ~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~~~~v~e~F~~l  160 (167)
T d1z08a1          81 LVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDL  160 (167)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHH
T ss_pred             EEEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccccccchHHHHHHHHHcCCeEEEEecCCCcCHHHHHHHH
Confidence            99999999999999999988877666788999999999998888889999999999999999999999999999999999


Q ss_pred             HHHcCC
Q 028884          192 AKRLPR  197 (202)
Q Consensus       192 ~~~i~~  197 (202)
                      ++.+.+
T Consensus       161 ~~~i~~  166 (167)
T d1z08a1         161 CKRMIE  166 (167)
T ss_dssp             HHHHHC
T ss_pred             HHHHhh
Confidence            998754

>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=1.8e-36  Score=211.93  Aligned_cols=162  Identities=33%  Similarity=0.596  Sum_probs=146.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .+||+++|.+|+|||||+++|..+.+...+.++.+.+........ ++..+.+.+||++|++++..++..+++.+|++++
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~-~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~   80 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQV-NDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVL   80 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEE-TTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeee-cCceeeeeeeccCCccchhhhhhhhhccCceEEE
Confidence            489999999999999999999999988888888877776666655 4455899999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      |||++++.+++.+..|+..+... .+++|++||+||+|+.+.+.+..+++.++++.++++++++||++|.|++++|+.|+
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~  159 (164)
T d1z2aa1          81 VFSTTDRESFEAISSWREKVVAE-VGDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLA  159 (164)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHH-HCSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHH
T ss_pred             EEeccchhhhhhccccccccccc-CCCceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCCCcCHHHHHHHHH
Confidence            99999999999999999998776 35799999999999988888888999999999999999999999999999999999


Q ss_pred             HHcC
Q 028884          193 KRLP  196 (202)
Q Consensus       193 ~~i~  196 (202)
                      +.+.
T Consensus       160 ~~~l  163 (164)
T d1z2aa1         160 EKHL  163 (164)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            8874

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=2e-35  Score=207.14  Aligned_cols=164  Identities=52%  Similarity=0.914  Sum_probs=149.6

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.+||+|+|.+|||||||+++|..+.+...+.++............ +.....+.+||++|++.+..++..+++.+|++|
T Consensus         3 k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i   81 (167)
T d1z0ja1           3 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQY-QNELHKFLIWDTAGLERFRALAPMYYRGSAAAI   81 (167)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccc-cccccceeeeecCCchhhhHHHHHHHhhccceE
Confidence            5799999999999999999999999998888888777666655554 444588999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      +|||+++++++..+..|+..+......+.|+++|+||+|+.+.+.+..+++..++...++++++|||++|.|++++|..|
T Consensus        82 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~nV~e~f~~l  161 (167)
T d1z0ja1          82 IVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEI  161 (167)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHH
Confidence            99999999999999999988888778899999999999998878888999999999999999999999999999999999


Q ss_pred             HHHcC
Q 028884          192 AKRLP  196 (202)
Q Consensus       192 ~~~i~  196 (202)
                      ++.|+
T Consensus       162 ~~~i~  166 (167)
T d1z0ja1         162 SRRIP  166 (167)
T ss_dssp             HHHCC
T ss_pred             HHhCC
Confidence            99985

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=9.6e-36  Score=209.56  Aligned_cols=165  Identities=42%  Similarity=0.807  Sum_probs=149.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++.+||+|+|.+|||||||+++|..+.+...+.++.+.+.....+.+.+ ..+.+.+||++|++.+..++..+++.+|++
T Consensus         3 ~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~-~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~   81 (171)
T d2ew1a1           3 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEING-EKVKLQIWDTAGQERFRSITQSYYRSANAL   81 (171)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETT-EEEEEEEEEECCSGGGHHHHGGGSTTCSEE
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECC-EEEEEEEEECCCchhhHHHHHHHHhccceE
Confidence            4679999999999999999999999998888888888887777777654 448999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      ++|+|.+++.++..+.+|+..+.+......|+++|+||+|+.+...+..+++..+++..++++++|||++|.|++++|.+
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gV~e~f~~  161 (171)
T d2ew1a1          82 ILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLD  161 (171)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHH
T ss_pred             EEeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEccCCCCCHHHHHHH
Confidence            99999999999999999999888776778999999999998887788888999999999999999999999999999999


Q ss_pred             HHHHcC
Q 028884          191 IAKRLP  196 (202)
Q Consensus       191 l~~~i~  196 (202)
                      |+..+.
T Consensus       162 l~~~l~  167 (171)
T d2ew1a1         162 LACRLI  167 (171)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            987764

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.2e-35  Score=208.07  Aligned_cols=165  Identities=40%  Similarity=0.755  Sum_probs=149.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++.+||+|+|.+|+|||||+++|.++.+...+.++...+.........+ ..+.+.+||++|++.+..++..+++.+|++
T Consensus         2 ~y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~   80 (166)
T d1z0fa1           2 SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSG-QKIKLQIWDTAGQERFRAVTRSYYRGAAGA   80 (166)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETT-EEEEEEEEECTTGGGTCHHHHHHHHTCSEE
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECC-EEEEEEEeccCCchhHHHHHHHHhcCCcEE
Confidence            4578999999999999999999999998888887777777666666654 448999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |+|||+++..++..+..|+..+........|+++++||+|+........+++..+++..++++++|||++|.|++++|+.
T Consensus        81 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~v~e~f~~  160 (166)
T d1z0fa1          81 LMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLE  160 (166)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999998887889999999999999887888888999999999999999999999999999999


Q ss_pred             HHHHcC
Q 028884          191 IAKRLP  196 (202)
Q Consensus       191 l~~~i~  196 (202)
                      |++.+.
T Consensus       161 i~~~i~  166 (166)
T d1z0fa1         161 AAKKIY  166 (166)
T ss_dssp             HHHHHC
T ss_pred             HHHHhC
Confidence            998863

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.9e-35  Score=206.61  Aligned_cols=162  Identities=44%  Similarity=0.802  Sum_probs=147.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|.+|||||||+++|.++++...+.++.+........... +..+.+.+||++|++.+...+..++..+|++++|
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv   79 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLE-DRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVV   79 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECS-SCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccC-CCceeeeecccCCcchhccchHHHhhccceEEEe
Confidence            589999999999999999999999888888877776666565554 4459999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIAK  193 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~~  193 (202)
                      ||.+++.++..+.+|+..+.....++.|+++|+||+|+.+...+..+++..+++.+++++++|||++|.|++++|++|++
T Consensus        80 ~d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~f~~i~~  159 (164)
T d1yzqa1          80 YDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAA  159 (164)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHH
T ss_pred             eccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHH
Confidence            99999999999999999888776678999999999999887888889999999999999999999999999999999999


Q ss_pred             HcC
Q 028884          194 RLP  196 (202)
Q Consensus       194 ~i~  196 (202)
                      .+.
T Consensus       160 ~l~  162 (164)
T d1yzqa1         160 ALP  162 (164)
T ss_dssp             HSC
T ss_pred             hhC
Confidence            875

>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=1.4e-35  Score=208.13  Aligned_cols=165  Identities=31%  Similarity=0.537  Sum_probs=143.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.+||+|+|++|||||||+++|..+.+...+.++.+..+. ..+.+ ++..+.+.+||++|.+++..++..+++.+|+++
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~~-~~~~~-~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~i   80 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVL-DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFL   80 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEE-TTEEEEEEEEECCC---CHHHHHHHHHHCSEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCccccccc-ccccc-ccccccccccccccccchhhhhhhcccccceeE
Confidence            4689999999999999999999999988887777766553 33444 455699999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      +|||.+++.++..+..|+..+.+. ..++.|+++|+||+|+.+.+.+..+++..+++..+++++++||++|.|++++|++
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~  160 (168)
T d1u8za_          81 CVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFD  160 (168)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHH
Confidence            999999999999999999988765 4678999999999999887788899999999999999999999999999999999


Q ss_pred             HHHHcCCC
Q 028884          191 IAKRLPRP  198 (202)
Q Consensus       191 l~~~i~~~  198 (202)
                      |++.++++
T Consensus       161 l~~~i~~r  168 (168)
T d1u8za_         161 LMREIRAR  168 (168)
T ss_dssp             HHHHHHTC
T ss_pred             HHHHHHCc
Confidence            99988654

>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=7e-36  Score=210.64  Aligned_cols=169  Identities=28%  Similarity=0.496  Sum_probs=147.4

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      +..+.+||+|+|.+|||||||+++|..+.+...+.++.. +.....+.+ ++..+.+.+||++|.+++...+..+++.+|
T Consensus         2 ~~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~-~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~   79 (173)
T d2fn4a1           2 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSV-DGIPARLDILDTAGQEEFGAMREQYMRAGH   79 (173)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCC-EEEEEEEEE-TTEEEEEEEEECCCTTTTSCCHHHHHHHCS
T ss_pred             CCCCeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccc-cceeeEecc-CCeeeeeeccccccccccccccchhhccce
Confidence            345689999999999999999999999998777666543 333445555 455589999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQL  187 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~  187 (202)
                      ++|+|||++++.++..+..|+..+.+. ...+.|++||+||+|+...+....+++..+++..++++++|||++|.|++++
T Consensus        80 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~  159 (173)
T d2fn4a1          80 GFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEA  159 (173)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHH
T ss_pred             eeeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccccchhhhhHHHHhcCCEEEEEeCCCCcCHHHH
Confidence            999999999999999999999987654 4568999999999999877788889999999999999999999999999999


Q ss_pred             HHHHHHHcCCCC
Q 028884          188 FEEIAKRLPRPS  199 (202)
Q Consensus       188 ~~~l~~~i~~~~  199 (202)
                      |+.|++.+++.+
T Consensus       160 f~~l~~~i~k~~  171 (173)
T d2fn4a1         160 FEQLVRAVRKYQ  171 (173)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999887654

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.5e-35  Score=205.91  Aligned_cols=166  Identities=61%  Similarity=0.990  Sum_probs=151.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      ..+||+|+|.+|||||||+++|..+.+...+.++.+........... ...+.+.+||++|++.+..++..+++.+|+++
T Consensus         5 ~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   83 (170)
T d1r2qa_           5 CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLD-DTTVKFEIWDTAGQERYHSLAPMYYRGAQAAI   83 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEET-TEEEEEEEEEECCSGGGGGGHHHHHTTCSEEE
T ss_pred             eEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeecc-ceEEEEEeccCCCchhhhhhHHHHhhCcceEE
Confidence            36899999999999999999999999888888888777766666554 44589999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      +|||.++.+++..+..|+..+.+...++.|+++|+||+|+...+.+..+++..++...+++++++||++|.|++++|+.|
T Consensus        84 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~e~f~~l  163 (170)
T d1r2qa_          84 VVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI  163 (170)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEeccchhhHHHHHHHHhhhhhhccCCCceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCCHHHHHHHH
Confidence            99999999999999999998887777899999999999998888889999999999999999999999999999999999


Q ss_pred             HHHcCCC
Q 028884          192 AKRLPRP  198 (202)
Q Consensus       192 ~~~i~~~  198 (202)
                      ++.|.++
T Consensus       164 ~~~i~~n  170 (170)
T d1r2qa_         164 AKKLPKN  170 (170)
T ss_dssp             HHTSCCC
T ss_pred             HHHHhhC
Confidence            9998764

>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=4.1e-35  Score=205.92  Aligned_cols=164  Identities=31%  Similarity=0.512  Sum_probs=145.3

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.+||+++|++++|||||+++|.++.+...+.++....+ ...+.. ++..+.+.+||++|.+.+..++..+++.+|+++
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~l   80 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSY-LKHTEI-DNQWAILDVLDTAGQEEFSAMREQYMRTGDGFL   80 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEE-EEEEEE-TTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEE
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeecc-cccccc-ccccccccccccccccccccchhhhhhhccEEE
Confidence            479999999999999999999999998877777665444 333444 455699999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCC-CHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD-NINQLFE  189 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~-~i~~~~~  189 (202)
                      +|||++++.||..+..|+..+.+. ...+.|+++++||+|+.+.+.++.+++.++++.++++++++||+++. ||+++|+
T Consensus        81 lv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~nV~~~F~  160 (169)
T d1x1ra1          81 IVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFH  160 (169)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHH
T ss_pred             EecccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCCCCcCHHHHHH
Confidence            999999999999999999988665 55689999999999998888899999999999999999999999986 9999999


Q ss_pred             HHHHHcCC
Q 028884          190 EIAKRLPR  197 (202)
Q Consensus       190 ~l~~~i~~  197 (202)
                      .|++.+.+
T Consensus       161 ~l~~~i~~  168 (169)
T d1x1ra1         161 DLVRVIRQ  168 (169)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99998765

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.7e-35  Score=207.47  Aligned_cols=164  Identities=30%  Similarity=0.467  Sum_probs=145.5

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.+||+|+|++|||||||+++|.++.+...+.++....+ ...+.+ ++..+.+.+||++|.+.+..+...+++.+|++
T Consensus         2 ~k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~   79 (167)
T d1xtqa1           2 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITV-NGQEYHLQLVDTAGQDEYSIFPQTYSIDINGY   79 (167)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEE-TTEEEEEEEEECCCCCTTCCCCGGGTSSCCEE
T ss_pred             CcceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEec-CcEEEEeeecccccccccccccchhhhhhhhh
Confidence            3568999999999999999999999988877777777665 334444 45568999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      |+|||++++++|..+..|+..+... ...++|+++|+||+|+...+.+..+++..++++++++|++|||++|.|++++|+
T Consensus        80 ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~~v~~~f~  159 (167)
T d1xtqa1          80 ILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFR  159 (167)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHH
T ss_pred             hhhcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHH
Confidence            9999999999999999999888665 567899999999999988778889999999999999999999999999999999


Q ss_pred             HHHHHcC
Q 028884          190 EIAKRLP  196 (202)
Q Consensus       190 ~l~~~i~  196 (202)
                      .|+..+.
T Consensus       160 ~li~~~~  166 (167)
T d1xtqa1         160 RIILEAE  166 (167)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            9998764

>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=3.8e-35  Score=208.96  Aligned_cols=169  Identities=27%  Similarity=0.546  Sum_probs=142.0

Q ss_pred             CCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccC
Q 028884           27 SDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRG  106 (202)
Q Consensus        27 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~  106 (202)
                      +.+.+..+||+|+|.+|||||||+++|..+.+...+.++.... ....+.. ++..+.+.+||++|++.+...+..+++.
T Consensus         3 ~~~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~~~-~~~~~~~-~~~~~~l~i~D~~g~e~~~~~~~~~~~~   80 (185)
T d2atxa1           3 HGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDH-YAVSVTV-GGKQYLLGLYDTAGQEDYDRLRPLSYPM   80 (185)
T ss_dssp             SCCEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCC-EEEEEES-SSCEEEEEEECCCCSSSSTTTGGGGCTT
T ss_pred             CCCCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCceeee-eeEEEee-CCceEEeecccccccchhhhhhhhcccc
Confidence            3456779999999999999999999999999888777776543 3444444 4556899999999999999999999999


Q ss_pred             ccEEEEEEeCCChhHHHHHH-HHHHHHHHcCCCCCeEEEEEeCCCCCC------------CCCCChHHHHHHHHHcC-Ce
Q 028884          107 AAVAVVVYDITSPDSFNKAQ-YWVKELQKHGSPDIVMALVGNKADLHE------------KREVPAQDGIEYAEKNG-MF  172 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~  172 (202)
                      +|++++|||+++++||+.+. .|+..++.. .++.|+++|+||+|+.+            .+.+..+++.++++.++ ++
T Consensus        81 a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~  159 (185)
T d2atxa1          81 TDVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACC  159 (185)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHTHHHHHHHH-STTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSC
T ss_pred             cceeeeccccchHHHHHHHHHHHHHHHHhc-CCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCE
Confidence            99999999999999998875 455555554 66899999999999864            35678888999999887 78


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          173 FIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       173 ~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      |++|||++|.|++++|+.+++.+..|
T Consensus       160 ~~E~SAk~~~gv~e~F~~li~~il~P  185 (185)
T d2atxa1         160 YVECSALTQKGLKTVFDEAIIAILTP  185 (185)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHCC
T ss_pred             EEEecCCCCcCHHHHHHHHHHHHcCC
Confidence            99999999999999999999887543

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.8e-35  Score=208.16  Aligned_cols=167  Identities=31%  Similarity=0.451  Sum_probs=144.1

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.+||+|+|.+|||||||+++|+.+.+...+.++.+..+.. ... .++..+.+.+||++|.+.+......+++.+|+++
T Consensus         1 n~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~~~-~~~-~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~i   78 (171)
T d2erxa1           1 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQ-VIS-CDKSICTLQITDTTGSHQFPAMQRLSISKGHAFI   78 (171)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEEE-EEE-ETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeecccc-cee-eccccceeccccccccccccccccccccceeEEE
Confidence            46899999999999999999999998877777776654422 333 3556689999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc--CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH--GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~--~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|||+++++++..+..|+..+...  ...++|+++|+||+|+...+.+..+++.++++.+++++++|||++|.|++++|+
T Consensus        79 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~v~e~f~  158 (171)
T d2erxa1          79 LVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQ  158 (171)
T ss_dssp             EEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHH
T ss_pred             EEeecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHH
Confidence            999999999999999998877653  346789999999999987778888999999999999999999999999999999


Q ss_pred             HHHHHcCCCCC
Q 028884          190 EIAKRLPRPSP  200 (202)
Q Consensus       190 ~l~~~i~~~~~  200 (202)
                      .|++.+.+++.
T Consensus       159 ~l~~~~~~~~~  169 (171)
T d2erxa1         159 ELLNLEKRRTV  169 (171)
T ss_dssp             HHHHTCCSSCE
T ss_pred             HHHHHHHHhhC
Confidence            99998887653

>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=2e-35  Score=207.38  Aligned_cols=162  Identities=30%  Similarity=0.405  Sum_probs=127.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|++|||||||+++|.+..+... .++.. ......+.+ ++..+.+.+||++|++.+..++..+++.+|++|+|
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~~~-~~~~~-~~~~~~i~~-~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv   78 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDGPE-AEAAG-HTYDRSIVV-DGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   78 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC----------C-EEEEEEEEE-TTEEEEEEEEECC-------CHHHHHTSCSEEEEE
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccCCc-CCeee-eeecceeec-cccccceeeeecccccccceecccchhhhhhhcee
Confidence            7999999999999999999998765433 22322 333344444 45569999999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      ||++++.++..+..|+..+... ...++|+++|+||+|+.+..++...++..+++.+++++++|||++|.|++++|+.|+
T Consensus        79 ~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~~f~~l~  158 (168)
T d2gjsa1          79 YSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVV  158 (168)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHH
T ss_pred             ccccccccccccccccchhhcccccccceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeCCCCcCHHHHHHHHH
Confidence            9999999999999999988765 456789999999999988788889999999999999999999999999999999999


Q ss_pred             HHcCCC
Q 028884          193 KRLPRP  198 (202)
Q Consensus       193 ~~i~~~  198 (202)
                      +.+..+
T Consensus       159 ~~i~~~  164 (168)
T d2gjsa1         159 RQIRLR  164 (168)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            887654

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=9.8e-35  Score=205.09  Aligned_cols=165  Identities=44%  Similarity=0.777  Sum_probs=146.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++.+||+|+|.+|||||||+++|.++.+...+.++.+.......+... +..+.+.+||++|.+.+...+..+++.+|++
T Consensus         2 ~~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~   80 (175)
T d2f9la1           2 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVD-GKTIKAQIWDTAGQERYRRITSAYYRGAVGA   80 (175)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEET-TEEEEEEEEECSSGGGTTCCCHHHHTTCSEE
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEEC-CEEEEEEecccCCcHHHHHHHHHHhhccCeE
Confidence            467999999999999999999999999888877777777766666654 4558999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |+|||.+++.|+..+.+|+..+.....+++|+++|+||+|+.+......+....+....+.+++++||++|.|++++|+.
T Consensus        81 i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~i~e~f~~  160 (175)
T d2f9la1          81 LLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKN  160 (175)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeecccccccchHHHHHHhhcccCceEEEEecCCCcCHHHHHHH
Confidence            99999999999999999999998887788999999999999877777777788888999999999999999999999999


Q ss_pred             HHHHcC
Q 028884          191 IAKRLP  196 (202)
Q Consensus       191 l~~~i~  196 (202)
                      |++.+.
T Consensus       161 l~~~i~  166 (175)
T d2f9la1         161 ILTEIY  166 (175)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988764

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.2e-34  Score=207.82  Aligned_cols=168  Identities=39%  Similarity=0.721  Sum_probs=152.8

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccE
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAV  109 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~  109 (202)
                      .+..+||+|+|.+|||||||+++|..+.+...+.++.+.......+.+.+. .+.+.+||++|++++..++..+++.+|+
T Consensus         3 ~~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~-~~~l~i~Dt~G~e~~~~~~~~~~~~a~~   81 (194)
T d2bcgy1           3 YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGK-TVKLQIWDTAGQERFRTITSSYYRGSHG   81 (194)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTE-EEEEEEECCTTTTTTTCCCGGGGTTCSE
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeE-EEEEEEEECCCchhhHHHHHHHhccCCE
Confidence            467899999999999999999999999988888888888777767766544 4899999999999999999999999999


Q ss_pred             EEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          110 AVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       110 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|+|||.++++++..+..|+..+......+.|+++|+||+|+.+...+..++...++...+++++++||++|.|+.++|+
T Consensus        82 ~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~gi~e~f~  161 (194)
T d2bcgy1          82 IIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFL  161 (194)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccchhHHHHhhhhhccCcceEEEecCcCccHHHHHH
Confidence            99999999999999999998888877788999999999999988888899999999999999999999999999999999


Q ss_pred             HHHHHcCCC
Q 028884          190 EIAKRLPRP  198 (202)
Q Consensus       190 ~l~~~i~~~  198 (202)
                      .|++.+.+.
T Consensus       162 ~l~~~i~~~  170 (194)
T d2bcgy1         162 TMARQIKES  170 (194)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999887643

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=8.5e-35  Score=205.20  Aligned_cols=166  Identities=39%  Similarity=0.720  Sum_probs=149.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++.+||+|+|.+|||||||+++|..+.+...+.++.........+.. +.....+.+||++|++++..++..+++.+|++
T Consensus         3 ~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~   81 (174)
T d2bmea1           3 DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINV-GGKYVKLQIWDTAGQERFRSVTRSYYRGAAGA   81 (174)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEE-TTEEEEEEEEEECCSGGGHHHHHTTSTTCSEE
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEe-cCcceeEEEEECCCchhhhhhHHHHhhhCCEE
Confidence            46799999999999999999999999988888877777666555554 45558999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |+|||.++++++..+..|+..+......++|+++|+||+|+..........+..+++..+++++++||++|.|++++|++
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gi~e~f~~  161 (174)
T d2bmea1          82 LLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQ  161 (174)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCCCcCHHHHHHH
Confidence            99999999999999999999988887789999999999999887888888899999999999999999999999999999


Q ss_pred             HHHHcCC
Q 028884          191 IAKRLPR  197 (202)
Q Consensus       191 l~~~i~~  197 (202)
                      |++.+.+
T Consensus       162 l~~~i~~  168 (174)
T d2bmea1         162 CARKILN  168 (174)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988654

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=2.2e-35  Score=208.10  Aligned_cols=167  Identities=40%  Similarity=0.741  Sum_probs=122.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++.+||+|+|.++||||||+++|.++.+...+.++.+.......+...+ ..+.+.+||+||++.+..++..+++.+|++
T Consensus         4 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~   82 (173)
T d2fu5c1           4 DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDG-KRIKLQIWDTAGQERFRTITTAYYRGAMGI   82 (173)
T ss_dssp             SEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETT-EEEEEEEEEC---------CCTTTTTCSEE
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECC-EEEEEEEEECCCchhhHHHHHHhccCCCEE
Confidence            5679999999999999999999999888877788887777777777654 448999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      |+|||++++.++..+..|+..+......+.|+++|+||.|+........+++..++...++++++|||++|.|++++|++
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~f~~  162 (173)
T d2fu5c1          83 MLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFT  162 (173)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHH
T ss_pred             EEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999998777888999999999999888788888899999999999999999999999999999


Q ss_pred             HHHHcCCC
Q 028884          191 IAKRLPRP  198 (202)
Q Consensus       191 l~~~i~~~  198 (202)
                      |++.+.++
T Consensus       163 l~~~i~~k  170 (173)
T d2fu5c1         163 LARDIKAK  170 (173)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99988543

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.6e-35  Score=206.41  Aligned_cols=165  Identities=41%  Similarity=0.810  Sum_probs=144.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.+||+|+|++|||||||+++|.++.+...+.++............. +..+.+.+||++|+..+..++..+++.+|++|
T Consensus         2 y~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~i   80 (173)
T d2a5ja1           2 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNID-GKQIKLQIWDTAGQESFRSITRSYYRGAAGAL   80 (173)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEET-TEEEEEEEECCTTGGGTSCCCHHHHTTCSEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeee-eeEEEEEeecccCccchhhHHHHHhhccCEEE
Confidence            56899999999999999999999999888877777666666655554 45589999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEI  191 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l  191 (202)
                      +|||++++.+|..+.+|+..+......++|++||+||+|+........++...+++..+++++++||++|.|++++|..|
T Consensus        81 lv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~~V~e~f~~i  160 (173)
T d2a5ja1          81 LVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINT  160 (173)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHH
T ss_pred             EEEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHH
Confidence            99999999999999999998888777889999999999988777888889999999999999999999999999999999


Q ss_pred             HHHcCC
Q 028884          192 AKRLPR  197 (202)
Q Consensus       192 ~~~i~~  197 (202)
                      ++.+.+
T Consensus       161 ~~~i~~  166 (173)
T d2a5ja1         161 AKEIYR  166 (173)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988754

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.2e-34  Score=203.81  Aligned_cols=166  Identities=28%  Similarity=0.512  Sum_probs=140.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      +..+||+|+|++|||||||+++|..+.+...+.++... .....+.+ ++..+.+.+||++|.+.+......+++.+|++
T Consensus         3 ~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~-~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~   80 (171)
T d2erya1           3 QEKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIED-SYTKQCVI-DDRAARLDILDTAGQEEFGAMREQYMRTGEGF   80 (171)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCCE-EEEEEEEE-TTEEEEEEEEECC----CCHHHHHHHHHCSEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCcccCccccc-ceeeeeee-cccccccccccccccccccccccccccccceE
Confidence            34589999999999999999999999887777666553 33444544 45558999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      ++|||.+++.++..+..|+..+... .....|++||+||+|+.....+..+++..+++..+++|++|||++|.|++++|+
T Consensus        81 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~i~e~f~  160 (171)
T d2erya1          81 LLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFH  160 (171)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHH
T ss_pred             EEeeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcCCCCcCHHHHHH
Confidence            9999999999999999999876554 456799999999999988888899999999999999999999999999999999


Q ss_pred             HHHHHcCCC
Q 028884          190 EIAKRLPRP  198 (202)
Q Consensus       190 ~l~~~i~~~  198 (202)
                      .|++.+.+.
T Consensus       161 ~l~~~i~k~  169 (171)
T d2erya1         161 ELVRVIRKF  169 (171)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999988643

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=9.8e-34  Score=199.00  Aligned_cols=167  Identities=40%  Similarity=0.716  Sum_probs=137.9

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCC-ccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTS-KVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      .+..+||+|+|+++||||||+++|..+.+.... .++.+.+.....+... +..+.+.+|||+|++.+..++..+++.+|
T Consensus         3 ~d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d   81 (170)
T d2g6ba1           3 YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVD-GVKVKLQMWDTAGQERFRSVTHAYYRDAH   81 (170)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEET-TEEEEEEEEECCCC--------CCGGGCS
T ss_pred             CceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEec-CcEEEEEEEECCCchhhHHHHHHhhcCCc
Confidence            356799999999999999999999998875444 3444555555555554 45589999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLF  188 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~  188 (202)
                      ++++|||.+++.++..+..|+..+........|+++|+||.|+.....+..+++..+++..+++++++||++|.|++++|
T Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f  161 (170)
T d2g6ba1          82 ALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAF  161 (170)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHH
T ss_pred             eeEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcccccHHHHHHHHHHcCCEEEEEeCCCCcCHHHHH
Confidence            99999999999999999998888777767789999999999998888889999999999999999999999999999999


Q ss_pred             HHHHHHcCC
Q 028884          189 EEIAKRLPR  197 (202)
Q Consensus       189 ~~l~~~i~~  197 (202)
                      ++|++.|++
T Consensus       162 ~~l~~~i~k  170 (170)
T d2g6ba1         162 TAIAKELKR  170 (170)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHcCC
Confidence            999988753

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.6e-34  Score=201.44  Aligned_cols=164  Identities=34%  Similarity=0.581  Sum_probs=143.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.+||+|+|.+|||||||+++|..+.+...+.++.+... ...+.. ++..+.+.+||++|.+.+...+..+++.+|++|
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   79 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEV-DCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFA   79 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEES-SSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEe-eeeEEEeccccccCcccccccccccccccceeE
Confidence            468999999999999999999999998887777766554 333443 455599999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH-cCCeEEEeccCCCCCHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEK-NGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|||++++.+|+.+..|+..+.+. ..++.|++||+||+|+........+++..++++ .+++++++||++|.|++++|+
T Consensus        80 lv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~  159 (167)
T d1c1ya_          80 LVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFY  159 (167)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHH
T ss_pred             EeeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcCHHHHHH
Confidence            999999999999999999887664 456899999999999988888888888888887 478999999999999999999


Q ss_pred             HHHHHcCC
Q 028884          190 EIAKRLPR  197 (202)
Q Consensus       190 ~l~~~i~~  197 (202)
                      +|++.|.+
T Consensus       160 ~l~~~i~k  167 (167)
T d1c1ya_         160 DLVRQINR  167 (167)
T ss_dssp             HHHHHHTC
T ss_pred             HHHHHhcC
Confidence            99998764

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=8.8e-35  Score=207.24  Aligned_cols=168  Identities=35%  Similarity=0.624  Sum_probs=146.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCC---------cEEEEEEEeCCChhhhhhccc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDS---------TTVKFEIWDTAGQERYAALAP  101 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~i~D~~G~~~~~~~~~  101 (202)
                      +..+||+|+|.+|||||||+++|.++.+...+.++.+..+....+.+.+.         ..+.+.+||++|++.++.++.
T Consensus         3 d~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~~   82 (186)
T d2f7sa1           3 DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTT   82 (186)
T ss_dssp             SEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHH
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHHH
Confidence            56799999999999999999999999887777777666666665554432         246899999999999999999


Q ss_pred             ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCC
Q 028884          102 LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT  180 (202)
Q Consensus       102 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~  180 (202)
                      .+++.+|++|+|||++++.+++.+..|+..+... .....|++||+||.|+...+.+..+++..+++.++++++++||++
T Consensus        83 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~  162 (186)
T d2f7sa1          83 AFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAAT  162 (186)
T ss_dssp             HHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTT
T ss_pred             HHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHHHHcCCEEEEEeCCC
Confidence            9999999999999999999999999998876654 456788999999999988888999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHcCCC
Q 028884          181 ADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       181 ~~~i~~~~~~l~~~i~~~  198 (202)
                      |.|++++|++|++.+.++
T Consensus       163 ~~~i~e~f~~l~~~i~~k  180 (186)
T d2f7sa1         163 GQNVEKAVETLLDLIMKR  180 (186)
T ss_dssp             TBTHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHH
Confidence            999999999999987643

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=6.8e-35  Score=204.96  Aligned_cols=163  Identities=30%  Similarity=0.574  Sum_probs=138.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .+||+|+|++|+|||||+++|..+.+...+.++.+.++....+... +..+.+.+||++|...+..++..+++.+|++++
T Consensus         3 ~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~-~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~il   81 (170)
T d1i2ma_           3 QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTN-RGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAII   81 (170)
T ss_dssp             EEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBT-TCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccc-cccccccccccccccccceecchhcccccchhh
Confidence            6899999999999999999999999888888888877777666654 444999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      |||++++.||+.+..|+..+.+. .+++|+++|+||+|+......  .+...++...+++++++||++|.|++++|++|+
T Consensus        82 v~d~~~~~Sf~~~~~~~~~~~~~-~~~~piilvgnK~Dl~~~~~~--~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~  158 (170)
T d1i2ma_          82 MFDVTSRVTYKNVPNWHRDLVRV-CENIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLA  158 (170)
T ss_dssp             EEETTSGGGGTTHHHHHHHHHHH-HCSCCEEEEEECCCCSCSCCT--TTSHHHHSSCSSEEEEEBTTTTBTTTHHHHHHH
T ss_pred             ccccccccccchhHHHHHHHhhc-cCCCceeeecchhhhhhhhhh--hHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999999988776 357999999999998665433  345577888999999999999999999999999


Q ss_pred             HHcCCCC
Q 028884          193 KRLPRPS  199 (202)
Q Consensus       193 ~~i~~~~  199 (202)
                      +.+..++
T Consensus       159 ~~l~~~~  165 (170)
T d1i2ma_         159 RKLIGDP  165 (170)
T ss_dssp             HHHHTCT
T ss_pred             HHHccCC
Confidence            9886543

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.1e-33  Score=198.77  Aligned_cols=164  Identities=54%  Similarity=0.935  Sum_probs=147.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .+||+|+|++|+|||||+++|..+.+...+.++.+..+..+.+... +..+.+.+||++|.+.+..++..+++.+|++++
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~-~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~il   81 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTIN-EHTVKFEIWDTAGQERFASLAPMYYRNAQAALV   81 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEET-TEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccc-cccccccccccCCchhHHHHHHHHHhccceEEE
Confidence            5899999999999999999999999988888888877766666654 455899999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC---CCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE---KREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~---~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      |||.+++.++..+..|+..+........|+++++||+|+.+   .+.+..+++.++++..+++|+++||++|.|++++|.
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gV~e~F~  161 (170)
T d1ek0a_          82 VYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFL  161 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHH
T ss_pred             EEeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHH
Confidence            99999999999999999887776677899999999999754   356788899999999999999999999999999999


Q ss_pred             HHHHHcCC
Q 028884          190 EIAKRLPR  197 (202)
Q Consensus       190 ~l~~~i~~  197 (202)
                      .|++.|.-
T Consensus       162 ~i~~~i~~  169 (170)
T d1ek0a_         162 GIGEKIPL  169 (170)
T ss_dssp             HHHTTSCC
T ss_pred             HHHHHhcc
Confidence            99988763

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.6e-34  Score=202.71  Aligned_cols=163  Identities=35%  Similarity=0.478  Sum_probs=139.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .+||+|+|++|||||||+++|..+.+...+.++.+..+....  ..++..+.+.+||++|...+. ....+++.+|++++
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~~~~--~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~il   78 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQA--TIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVL   78 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEEE--EETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeccccccc--cccccceEEEEeecccccccc-cchhhhccccccee
Confidence            589999999999999999999999988888888766654433  235666899999999987664 34557788999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCC-CHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTAD-NINQLFEE  190 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~-~i~~~~~~  190 (202)
                      |||++++.++..+..|+..+... ...+.|+++|+||+|+.+.+.+..+++..++++++++|+++||++|. ||+++|..
T Consensus        79 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Saktg~gnV~e~F~~  158 (168)
T d2atva1          79 VYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYE  158 (168)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHH
T ss_pred             ecccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEccccCCcCHHHHHHH
Confidence            99999999999998887765443 45689999999999998777889999999999999999999999998 59999999


Q ss_pred             HHHHcCCC
Q 028884          191 IAKRLPRP  198 (202)
Q Consensus       191 l~~~i~~~  198 (202)
                      |++.+.++
T Consensus       159 l~~~i~~~  166 (168)
T d2atva1         159 LCREVRRR  166 (168)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99988654

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.1e-34  Score=201.03  Aligned_cols=163  Identities=34%  Similarity=0.559  Sum_probs=142.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.+||+|+|++|||||||+++|.++.+...+.++.+... ...... ++..+.+.+||++|.+.+......+++.+|+++
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~i   79 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFY-RKEIEV-DSSPSVLEILDTAGTEQFASMRDLYIKNGQGFI   79 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEE-TTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeeee-eeeeec-CcceEeeccccCCCccccccchHHHhhccccee
Confidence            478999999999999999999999988777776665433 333333 455689999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      +|||.+++.++..+..|+..+... ..+++|++||+||+|+.+...+..+++..+++..++++++|||++|.|++++|+.
T Consensus        80 lv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~i~e~f~~  159 (167)
T d1kaoa_          80 LVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAE  159 (167)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHH
T ss_pred             eeeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCcCHHHHHHH
Confidence            999999999999999999887664 4568999999999999887788889999999999999999999999999999999


Q ss_pred             HHHHcC
Q 028884          191 IAKRLP  196 (202)
Q Consensus       191 l~~~i~  196 (202)
                      |++.|.
T Consensus       160 i~~~i~  165 (167)
T d1kaoa_         160 IVRQMN  165 (167)
T ss_dssp             HHHHHH
T ss_pred             HHHHHc
Confidence            998763

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=5.1e-34  Score=201.30  Aligned_cols=167  Identities=36%  Similarity=0.652  Sum_probs=133.3

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.+||+|+|++|||||||+++|.++.+...+.++.+...........+.....+.+||++|.+.+...+..+++.+|+++
T Consensus         1 n~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   80 (175)
T d1ky3a_           1 NILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCV   80 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEE
T ss_pred             CeEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEE
Confidence            36899999999999999999999999888877777777767776666666688999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc----CCCCCeEEEEEeCCCCCCC-CCCChHHHHHHHHHcC-CeEEEeccCCCCCHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH----GSPDIVMALVGNKADLHEK-REVPAQDGIEYAEKNG-MFFIETSAKTADNIN  185 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~----~~~~~p~ivv~nK~D~~~~-~~~~~~~~~~~~~~~~-~~~~~~s~~~~~~i~  185 (202)
                      +|||.+++.+|..+..|+..+...    ...++|+++|+||+|+.+. ..+..+++.++++..+ +++++|||++|.|++
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~gv~  160 (175)
T d1ky3a_          81 LVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVD  160 (175)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHH
T ss_pred             EEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEEeCCCCcCHH
Confidence            999999999999999999887643    2357899999999998764 3467788888998875 789999999999999


Q ss_pred             HHHHHHHHHcCCC
Q 028884          186 QLFEEIAKRLPRP  198 (202)
Q Consensus       186 ~~~~~l~~~i~~~  198 (202)
                      ++|++|++.+.++
T Consensus       161 e~f~~l~~~~l~~  173 (175)
T d1ky3a_         161 TAFEEIARSALQQ  173 (175)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999877654

>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=1.4e-33  Score=199.49  Aligned_cols=163  Identities=34%  Similarity=0.567  Sum_probs=136.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      ..||+|+|++|||||||+++|..+.+...+.++..... ...... ++..+.+.+||++|++.+...+..+++.+|++|+
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~il   79 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEV-DGKQVELALWDTAGLEDYDRLRPLSYPDTDVILM   79 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEE-TTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeec-cccccc-cccceeeeccccCccchhcccchhhcccchhhhh
Confidence            47999999999999999999999998877777665333 333443 4555899999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcC-CeEEEeccC
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNG-MFFIETSAK  179 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~s~~  179 (202)
                      |||++++.||+.+..|+..+.....++.|++||+||+|+...            ..+..+++..+++..+ .+|++|||+
T Consensus        80 v~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAk  159 (177)
T d1kmqa_          80 CFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAK  159 (177)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTT
T ss_pred             hcccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCC
Confidence            999999999998866554443333578999999999998642            4577888999999987 479999999


Q ss_pred             CCCCHHHHHHHHHHHcCC
Q 028884          180 TADNINQLFEEIAKRLPR  197 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i~~  197 (202)
                      +|.|++++|+.|++.+.+
T Consensus       160 t~~gi~e~F~~i~~~~l~  177 (177)
T d1kmqa_         160 TKDGVREVFEMATRAALQ  177 (177)
T ss_dssp             TCTTHHHHHHHHHHHHHC
T ss_pred             CCcCHHHHHHHHHHHHhC
Confidence            999999999999987653

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.6e-33  Score=197.22  Aligned_cols=164  Identities=42%  Similarity=0.779  Sum_probs=141.7

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .+||+|+|.+|+|||||+++|+.+.+...+.++.+.+.....+...+ ..+.+.+||+||++.+..++..+++.+|++|+
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~-~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   80 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDING-KKVKLQIWDTAGQERFRTITTAYYRGAMGIIL   80 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSS-CEEEEEEECCTTGGGTSCCCHHHHTTEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECC-EEEEEEEEECCCchhhHHHHHHHHhcCCEEEE
Confidence            68999999999999999999999998888888888888888877654 44899999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEEIA  192 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  192 (202)
                      |||.+++.+++.+..|+..+........|++++++|.|+.. .....+++..++...++++++|||++|.|++++|++|+
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~e~f~~l~  159 (166)
T d1g16a_          81 VYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLA  159 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTT-CCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHH
T ss_pred             EEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhh-hhhhHHHHHHHHHhcCCeEEEECCCCCCCHHHHHHHHH
Confidence            99999999999999998888887778899999999999754 45667889999999999999999999999999999999


Q ss_pred             HHcCCC
Q 028884          193 KRLPRP  198 (202)
Q Consensus       193 ~~i~~~  198 (202)
                      +.+.++
T Consensus       160 ~~i~~k  165 (166)
T d1g16a_         160 KLIQEK  165 (166)
T ss_dssp             HHHHHT
T ss_pred             HHHHhc
Confidence            887653

>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=2.1e-33  Score=199.56  Aligned_cols=166  Identities=31%  Similarity=0.616  Sum_probs=139.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++.+||+|+|.+|||||||+++|+.+.+...+.++..... ...+.. ++..+.+.+||++|++.+..++..+++.+|++
T Consensus         3 p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~~~~-~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~   80 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMV-DGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVS   80 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEE-TTEEEEEEEECCCCSGGGTTTGGGGCTTCSEE
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHHhCCCCcccccceeece-eeeeec-cCcceEEEeecccccccchhhhhhccccccee
Confidence            4689999999999999999999999998888777766443 334444 45568999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHH-HHHHHHHcCCCCCeEEEEEeCCCCCCC------------CCCChHHHHHHHHHcC-CeEEEe
Q 028884          111 VVVYDITSPDSFNKAQY-WVKELQKHGSPDIVMALVGNKADLHEK------------REVPAQDGIEYAEKNG-MFFIET  176 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~-~~~~i~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~  176 (202)
                      ++|||++++++|+.+.. |+..++.. ..++|++||+||+|+.+.            ......+...+++.++ ++|++|
T Consensus        81 ilv~d~~~~~sf~~i~~~~~~~~~~~-~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~  159 (183)
T d1mh1a_          81 LICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLEC  159 (183)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHH-STTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             eeeeccchHHHHHHHHHHHHHHHHHh-CCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEc
Confidence            99999999999999865 55555544 568999999999997542            3456677888888876 789999


Q ss_pred             ccCCCCCHHHHHHHHHHHcCCCC
Q 028884          177 SAKTADNINQLFEEIAKRLPRPS  199 (202)
Q Consensus       177 s~~~~~~i~~~~~~l~~~i~~~~  199 (202)
                      ||++|.|++++|+.|++.+..+.
T Consensus       160 SAk~~~~V~e~F~~l~~~il~pp  182 (183)
T d1mh1a_         160 SALTQRGLKTVFDEAIRAVLCPP  182 (183)
T ss_dssp             CTTTCTTHHHHHHHHHHHHSCCC
T ss_pred             CCCCCcCHHHHHHHHHHHHcCCC
Confidence            99999999999999999988774

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.4e-33  Score=196.28  Aligned_cols=163  Identities=32%  Similarity=0.549  Sum_probs=142.1

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +++||+|+|+++||||||+++|.++.+...+.++.+...... +.. ++..+.+.+||++|.+.+...+..+++.+++++
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~-~~~-~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~i   79 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQ-VVI-DGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL   79 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEE-EEE-TTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeeccc-eee-eceeeeeeeeeccCccccccchhhhhhcccccc
Confidence            468999999999999999999999998777777666554333 333 455689999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      +|||.+++.+++.+..|+..+... ..+++|+++|+||+|+.. ..+..+++..+++..+++++++||++|.|++++|++
T Consensus        80 iv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~  158 (166)
T d1ctqa_          80 CVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYT  158 (166)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHH
T ss_pred             eeecccccccHHHHHHHHHHHHHhcCCCCCeEEEEeccccccc-ccccHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHH
Confidence            999999999999999999998765 456799999999999854 456778899999999999999999999999999999


Q ss_pred             HHHHcCC
Q 028884          191 IAKRLPR  197 (202)
Q Consensus       191 l~~~i~~  197 (202)
                      |++.+++
T Consensus       159 i~~~i~~  165 (166)
T d1ctqa_         159 LVREIRQ  165 (166)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHh
Confidence            9998864

>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=4.9e-33  Score=198.93  Aligned_cols=166  Identities=27%  Similarity=0.479  Sum_probs=139.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .+||+|+|++|||||||+++|..+.+...+.++.+... ...... ++..+.+.+||++|++++..++..+++.+|++++
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~il   80 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMI-GGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLV   80 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEE-TTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeec-ceeEee-CCceeeeeccccccchhhhhhhhhcccccceeec
Confidence            68999999999999999999999998888777766443 333333 4455899999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC------------CCCCChHHHHHHHHHc-CCeEEEeccC
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE------------KREVPAQDGIEYAEKN-GMFFIETSAK  179 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~-~~~~~~~s~~  179 (202)
                      |||+++++||+.+..|+........++.|+++|+||+|+.+            ...+..+++..+++.. +++|++|||+
T Consensus        81 v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk  160 (191)
T d2ngra_          81 CFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSAL  160 (191)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCTT
T ss_pred             ccccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeCC
Confidence            99999999999997654444334367899999999999753            3457888899999886 4789999999


Q ss_pred             CCCCHHHHHHHHHHHcCCCCC
Q 028884          180 TADNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i~~~~~  200 (202)
                      +|.|++++|+.|+..+.++..
T Consensus       161 ~~~~V~e~f~~l~~~~~~~~~  181 (191)
T d2ngra_         161 TQKGLKNVFDEAILAALEPPE  181 (191)
T ss_dssp             TCTTHHHHHHHHHHHHTSCCS
T ss_pred             CCcCHHHHHHHHHHHHhcCcC
Confidence            999999999999988776643

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=6.1e-33  Score=196.15  Aligned_cols=167  Identities=44%  Similarity=0.785  Sum_probs=146.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.+||+|+|.+|+|||||+++|.++.+.....++.+.......+.+. +..+.+.+||++|++++..++..+++.+|++
T Consensus         5 ~~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~i   83 (177)
T d1x3sa1           5 LTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVD-GNKAKLAIWDTAGQERFRTLTPSYYRGAQGV   83 (177)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEET-TEEEEEEEEEECSSGGGCCSHHHHHTTCCEE
T ss_pred             cceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEe-ccccEEEEEECCCchhhHHHHHHHHhcCCEE
Confidence            467999999999999999999999999888877777777666666554 4448999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      ++|||++++.++..+..|+..+... .....|+++++||.|.. ...+...++..+++..+++++++||++|.|++++|+
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~-~~~v~~~~~~~~~~~~~~~~~e~Sa~tg~gv~e~f~  162 (177)
T d1x3sa1          84 ILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFE  162 (177)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSS-SCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEECCCccccccchhhhhhhcccccccceeeEEEeeccccc-cccccHHHHHHHHHHCCCEEEEEeCCCCCCHHHHHH
Confidence            9999999999999999999988765 34568899999999964 456788889999999999999999999999999999


Q ss_pred             HHHHHcCCCC
Q 028884          190 EIAKRLPRPS  199 (202)
Q Consensus       190 ~l~~~i~~~~  199 (202)
                      +|++.+.+++
T Consensus       163 ~l~~~l~~~p  172 (177)
T d1x3sa1         163 ELVEKIIQTP  172 (177)
T ss_dssp             HHHHHHHTSG
T ss_pred             HHHHHHccCc
Confidence            9999887663

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=7.1e-33  Score=193.61  Aligned_cols=160  Identities=36%  Similarity=0.696  Sum_probs=139.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh-cccccccCccEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA-LAPLYYRGAAVA  110 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~~  110 (202)
                      +.+||+|+|.+|||||||+++|..+.+...+.++.+.........+... ...+.+||++|...+.. .+..+++.+|++
T Consensus         1 r~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~   79 (165)
T d1z06a1           1 RIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGE-RIKIQLWDTAGQERFRKSMVQHYYRNVHAV   79 (165)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTE-EEEEEEEECCCSHHHHTTTHHHHHTTCCEE
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeecc-ceEEEEEeccCchhhccccceeeecCCCce
Confidence            3689999999999999999999999988888888777776666666544 48899999999877654 567789999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCC---CCCHHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKT---ADNINQ  186 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~---~~~i~~  186 (202)
                      |+|||++++.+|+.+..|+..+.+. ..+++|++||+||+|+.+...+..+++.++++.+++++++|||++   +.||++
T Consensus        80 ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~~~~~V~e  159 (165)
T d1z06a1          80 VFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEA  159 (165)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHH
T ss_pred             EEEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEecccCCcCcCHHH
Confidence            9999999999999999999988765 456899999999999988888899999999999999999999987   569999


Q ss_pred             HHHHHH
Q 028884          187 LFEEIA  192 (202)
Q Consensus       187 ~~~~l~  192 (202)
                      +|++|+
T Consensus       160 ~F~~lA  165 (165)
T d1z06a1         160 IFMTLA  165 (165)
T ss_dssp             HHHHHC
T ss_pred             HHHHhC
Confidence            999874

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.2e-33  Score=195.60  Aligned_cols=165  Identities=28%  Similarity=0.384  Sum_probs=135.5

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCC-CccccceeEEEEEEEecCCcEEEEEEEeCCC---hhhhhhcccccccCc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPT-SKVTVGASFLSQTIALQDSTTVKFEIWDTAG---QERYAALAPLYYRGA  107 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G---~~~~~~~~~~~~~~~  107 (202)
                      ..+||+++|.+|+|||||+++|.+..+... ..++...+...+.+.+. +..+.+.+||+++   ++++  ++..+++.+
T Consensus         2 ~~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~   78 (172)
T d2g3ya1           2 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVD-GESATIILLDMWENKGENEW--LHDHCMQVG   78 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEET-TEEEEEEEECCTTTTHHHHH--HHHCCCCCC
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccC-Cceeeeeeeccccccccccc--ccccccccc
Confidence            358999999999999999999998765433 33444445555555554 4458889999765   4444  566789999


Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNINQ  186 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~  186 (202)
                      |++|+|||++++.++..+..|+..+... ..+++|++||+||+|+...+++..+++.+++..++++++++||++|.|+++
T Consensus        79 ~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~i~~  158 (172)
T d2g3ya1          79 DAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKE  158 (172)
T ss_dssp             SEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHH
T ss_pred             ceeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeCCCCcCHHH
Confidence            9999999999999999999999887664 456899999999999988788889999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCC
Q 028884          187 LFEEIAKRLPRPS  199 (202)
Q Consensus       187 ~~~~l~~~i~~~~  199 (202)
                      +|+.|++.+..++
T Consensus       159 ~f~~l~~~i~~rr  171 (172)
T d2g3ya1         159 LFEGIVRQVRLRR  171 (172)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHcc
Confidence            9999999886554

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.9e-32  Score=190.50  Aligned_cols=164  Identities=34%  Similarity=0.640  Sum_probs=139.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      .+.+||+|+|.++||||||+++|..+.+...+.++.+........... +..+.+.+||++|...+...+..++..+|++
T Consensus         4 ~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~   82 (174)
T d1wmsa_           4 SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVD-GHFVTMQIWDTAGQERFRSLRTPFYRGSDCC   82 (174)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEET-TEEEEEEEEECCCCGGGHHHHGGGGTTCSEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeec-CceeeEeeecccCcceehhhhhhhhhccceE
Confidence            467899999999999999999999999888888877777666666554 4558999999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc----CCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc-CCeEEEeccCCCCCHH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH----GSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN-GMFFIETSAKTADNIN  185 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~----~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~s~~~~~~i~  185 (202)
                      ++++|.+++.++..+..|++.+...    ..++.|+++|+||+|+.+ +.+..+++..++++. .+++++|||++|.|++
T Consensus        83 i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~-~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI~  161 (174)
T d1wmsa_          83 LLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVA  161 (174)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS-CSSCHHHHHHHHHHTTCCCEEECCTTTCTTHH
T ss_pred             EEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhh-ccCcHHHHHHHHHHcCCCeEEEEcCCCCcCHH
Confidence            9999999999999999999877543    345789999999999854 567888899999876 5889999999999999


Q ss_pred             HHHHHHHHHcC
Q 028884          186 QLFEEIAKRLP  196 (202)
Q Consensus       186 ~~~~~l~~~i~  196 (202)
                      ++|++|++.+.
T Consensus       162 e~f~~l~~~il  172 (174)
T d1wmsa_         162 AAFEEAVRRVL  172 (174)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999998875

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=1.1e-32  Score=195.93  Aligned_cols=164  Identities=37%  Similarity=0.694  Sum_probs=140.8

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      .+||+|+|.+|||||||+++|.++.+...+.++.+...........+.. +.+.+||++|...+...+..++..+|++++
T Consensus         2 ~~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~-~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~   80 (184)
T d1vg8a_           2 LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRL-VTMQIWDTAGQERFQSLGVAFYRGADCCVL   80 (184)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCE-EEEEEEEECSSGGGSCSCCGGGTTCSEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCce-EEEEeeecCCcccccccccccccCccEEEE
Confidence            4899999999999999999999999988888888887777777665444 899999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcC----CCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH-cCCeEEEeccCCCCCHHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHG----SPDIVMALVGNKADLHEKREVPAQDGIEYAEK-NGMFFIETSAKTADNINQL  187 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~----~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~s~~~~~~i~~~  187 (202)
                      |+|.+++.++..+..|+..+....    ..++|+++|+||+|+.+ ..+..++...++.. .++++++|||++|.|++++
T Consensus        81 ~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~  159 (184)
T d1vg8a_          81 VFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQA  159 (184)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSC-CCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHH
T ss_pred             eecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccc-cchhHHHHHHHHHHhcCCeEEEEcCCCCcCHHHH
Confidence            999999999999999998876542    34689999999999865 44566666666654 5789999999999999999


Q ss_pred             HHHHHHHcCCC
Q 028884          188 FEEIAKRLPRP  198 (202)
Q Consensus       188 ~~~l~~~i~~~  198 (202)
                      |++|++.+.++
T Consensus       160 f~~l~~~i~~~  170 (184)
T d1vg8a_         160 FQTIARNALKQ  170 (184)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc
Confidence            99999887653

>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=5.7e-32  Score=191.38  Aligned_cols=163  Identities=26%  Similarity=0.479  Sum_probs=136.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      ..||+++|.+|||||||+++|..+.+...+.++..... ...... ++..+.+.+||++|++.+...+..+++.+|++|+
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~il   79 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEI-DTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLI   79 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC-SSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeecc-cccccc-cceEEeeccccccccccccccccchhhhhhhhhe
Confidence            47999999999999999999999998877777665433 334444 4566999999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC------------CCCCChHHHHHHHHHcC-CeEEEeccC
Q 028884          113 VYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE------------KREVPAQDGIEYAEKNG-MFFIETSAK  179 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~s~~  179 (202)
                      |||+++++||+.+..|+........++.|+++|+||+|+..            ...+..++...++++.+ ++|++|||+
T Consensus        80 v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk  159 (179)
T d1m7ba_          80 CFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSAL  159 (179)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTT
T ss_pred             eeecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCC
Confidence            99999999999987655444333356899999999999753            35578889999998876 579999999


Q ss_pred             CCCC-HHHHHHHHHHHcCC
Q 028884          180 TADN-INQLFEEIAKRLPR  197 (202)
Q Consensus       180 ~~~~-i~~~~~~l~~~i~~  197 (202)
                      +|.| ++++|+.+...+..
T Consensus       160 ~~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         160 QSENSVRDIFHVATLACVN  178 (179)
T ss_dssp             TBHHHHHHHHHHHHHHHHT
T ss_pred             CCCcCHHHHHHHHHHHHhc
Confidence            9985 99999999988754

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=99.97  E-value=1.8e-30  Score=181.19  Aligned_cols=157  Identities=24%  Similarity=0.369  Sum_probs=126.7

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEE
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVV  112 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~  112 (202)
                      ++||+++|++++|||||+++|..+.+...+.++.+....  .+...+   +.+.+||+||++.+...+..++..+|++++
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~--~~~~~~---~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~   76 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR--KITKGN---VTIKLWDIGGQPRFRSMWERYCRGVSAIVY   76 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE--EEEETT---EEEEEEEECCSHHHHTTHHHHHTTCSEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeee--eeeeee---EEEEEeeccccccccccccccccccchhhc
Confidence            689999999999999999999999987777776655443  333332   789999999999999999999999999999


Q ss_pred             EEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHH-----HHHcCCeEEEeccCCCCCHHH
Q 028884          113 VYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEY-----AEKNGMFFIETSAKTADNINQ  186 (202)
Q Consensus       113 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~s~~~~~~i~~  186 (202)
                      |||+++..++.....|+..+... ..+++|++||+||.|+.....  ..+..+.     +...+++++++||++|.|+++
T Consensus        77 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e  154 (164)
T d1zd9a1          77 MVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALD--EKELIEKMNLSAIQDREICCYSISCKEKDNIDI  154 (164)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHH
T ss_pred             ccccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhhh--HHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHH
Confidence            99999999999988887766543 456899999999999865332  2222222     223456799999999999999


Q ss_pred             HHHHHHHHcC
Q 028884          187 LFEEIAKRLP  196 (202)
Q Consensus       187 ~~~~l~~~i~  196 (202)
                      +|++|++.++
T Consensus       155 ~~~~l~~~~k  164 (164)
T d1zd9a1         155 TLQWLIQHSK  164 (164)
T ss_dssp             HHHHHHHTCC
T ss_pred             HHHHHHHccC
Confidence            9999998764

>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=99.97  E-value=7.2e-30  Score=178.18  Aligned_cols=159  Identities=19%  Similarity=0.257  Sum_probs=121.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.+||+|+|.+|||||||+++|.+..+. ...++.+..  ...+..  +. +.+.+||++|++.++..+..+++.+|+++
T Consensus         1 k~~ki~ivG~~~~GKTsLi~~l~~~~~~-~~~~t~~~~--~~~~~~--~~-~~~~~~D~~G~~~~~~~~~~~~~~~~~~i   74 (165)
T d1ksha_           1 RELRLLMLGLDNAGKTTILKKFNGEDVD-TISPTLGFN--IKTLEH--RG-FKLNIWDVGGQKSLRSYWRNYFESTDGLI   74 (165)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCCCS-SCCCCSSEE--EEEEEE--TT-EEEEEEEECCSHHHHTTGGGGCTTCSEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHcCCCCC-cccceEeee--eeeccc--cc-cceeeeecCcchhhhhHHHhhhhhhhcce
Confidence            3689999999999999999999987653 334444333  223332  22 78999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHHH-HHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHH-----HHcCCeEEEeccCCCCCHH
Q 028884          112 VVYDITSPDSFNKAQYWVKEL-QKHGSPDIVMALVGNKADLHEKREVPAQDGIEYA-----EKNGMFFIETSAKTADNIN  185 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i-~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~s~~~~~~i~  185 (202)
                      +|||.++..++.....++... ......+.|++||+||+|+.+....  .+.....     ....+++++|||++|.|+.
T Consensus        75 ~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~  152 (165)
T d1ksha_          75 WVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSC--NAIQEALELDSIRSHHWRIQGCSAVTGEDLL  152 (165)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCH--HHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             eeeecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccccCH--HHHHHHHHhhhhhcCCCEEEEEECCCCCCHH
Confidence            999999998888876665544 3334568999999999998654332  2222221     1224578999999999999


Q ss_pred             HHHHHHHHHcCCC
Q 028884          186 QLFEEIAKRLPRP  198 (202)
Q Consensus       186 ~~~~~l~~~i~~~  198 (202)
                      ++|++|++++.++
T Consensus       153 e~~~~l~~~i~~r  165 (165)
T d1ksha_         153 PGIDWLLDDISSR  165 (165)
T ss_dssp             HHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHcC
Confidence            9999999987653

>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=99.97  E-value=1.6e-30  Score=183.33  Aligned_cols=157  Identities=20%  Similarity=0.312  Sum_probs=122.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++.+||+++|++|||||||+++|.++.+.... ++.+  .....+...+   +.+.+||++|.+.++..+..+++.+|++
T Consensus        14 ~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~~~-~~~~--~~~~~i~~~~---~~~~i~d~~g~~~~~~~~~~~~~~~~~i   87 (176)
T d1fzqa_          14 DQEVRILLLGLDNAGKTTLLKQLASEDISHIT-PTQG--FNIKSVQSQG---FKLNVWDIGGQRKIRPYWRSYFENTDIL   87 (176)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCCEEEE-EETT--EEEEEEEETT---EEEEEEECSSCGGGHHHHHHHHTTCSEE
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHhcCCCCcce-eeee--eeEEEeccCC---eeEeEeeccccccchhHHHHHhhcccee
Confidence            46799999999999999999999987764332 2222  2233333332   7899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHH-----HHHHcCCeEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIE-----YAEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~-----~~~~~~~~~~~~s~~~~~~i  184 (202)
                      |+|||+++..++.....|+..+... ...++|++||+||+|+.....  .....+     .+....+.+++|||++|.|+
T Consensus        88 i~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~tg~gv  165 (176)
T d1fzqa_          88 IYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGEGV  165 (176)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTH
T ss_pred             EEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEecccccccc--HHHHHHHHHHHHHHhcCCEEEEEeCCCCCCH
Confidence            9999999999999988877766543 456789999999999875432  222221     12234567999999999999


Q ss_pred             HHHHHHHHHHc
Q 028884          185 NQLFEEIAKRL  195 (202)
Q Consensus       185 ~~~~~~l~~~i  195 (202)
                      +++|++|++.+
T Consensus       166 ~e~~~~l~~~i  176 (176)
T d1fzqa_         166 QDGMNWVCKNV  176 (176)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHhcC
Confidence            99999999865

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=1.8e-29  Score=177.66  Aligned_cols=158  Identities=22%  Similarity=0.376  Sum_probs=126.6

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.+||+|+|+++||||||+++|.++.+... .++....+ ...+.+ ++..+.+.+||++|...+.     +++.+|++|
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~~~~~f~~~-~~t~~~~~-~~~i~v-~~~~~~l~i~Dt~g~~~~~-----~~~~ad~~i   75 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRFLTGSYQVL-EKTESEQY-KKEMLV-DGQTHLVLIREEAGAPDAK-----FSGWADAVI   75 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHHHHSCCCCC-CCSSCEEE-EEEEEE-TTEEEEEEEEECSSCCCHH-----HHHHCSEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCCc-CCccceeE-EEEeec-CceEEEEEEeecccccccc-----cccccceeE
Confidence            579999999999999999999999987544 33333333 344444 4566999999999986543     577899999


Q ss_pred             EEEeCCChhHHHHHHHHHHHHHHc---CCCCCeEEEEEeCCCCCC--CCCCChHHHHHHHHH-cCCeEEEeccCCCCCHH
Q 028884          112 VVYDITSPDSFNKAQYWVKELQKH---GSPDIVMALVGNKADLHE--KREVPAQDGIEYAEK-NGMFFIETSAKTADNIN  185 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~i~~~---~~~~~p~ivv~nK~D~~~--~~~~~~~~~~~~~~~-~~~~~~~~s~~~~~~i~  185 (202)
                      +|||++++.||+.+..|+..+...   .....|+++|+||.|+..  ...+..+++..++.. .+++|++|||+++.|++
T Consensus        76 lVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~  155 (175)
T d2bmja1          76 FVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVD  155 (175)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTHH
T ss_pred             EEeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcCHH
Confidence            999999999999999998887644   345679999999888743  455677788888655 57889999999999999


Q ss_pred             HHHHHHHHHcCC
Q 028884          186 QLFEEIAKRLPR  197 (202)
Q Consensus       186 ~~~~~l~~~i~~  197 (202)
                      ++|..|++.+.+
T Consensus       156 ~~F~~l~~~i~~  167 (175)
T d2bmja1         156 RVFQEVAQKVVT  167 (175)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999987754

>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=99.96  E-value=2.4e-30  Score=183.46  Aligned_cols=162  Identities=22%  Similarity=0.347  Sum_probs=120.8

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCcc
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAA  108 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d  108 (202)
                      ...+.+||+++|.+|||||||+++|.++.+... .++.+...  ......  . +.+.+||++|++.++..+..++..+|
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~~-~~t~~~~~--~~~~~~--~-~~~~i~D~~g~~~~~~~~~~~~~~~~   86 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQIGEVVTT-KPTIGFNV--ETLSYK--N-LKLNVWDLGGQTSIRPYWRCYYADTA   86 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTCCSEEEEE-CSSTTCCE--EEEEET--T-EEEEEEEEC----CCTTGGGTTTTEE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCCcc-ccccceEE--EEEeeC--C-EEEEEEecccccccchhHHhhhccce
Confidence            456789999999999999999999988765322 23333322  222222  2 78999999999999999999999999


Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHH-cCCCCCeEEEEEeCCCCCCCCCCChHHHHH-----HHHHcCCeEEEeccCCCC
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE-----YAEKNGMFFIETSAKTAD  182 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~-----~~~~~~~~~~~~s~~~~~  182 (202)
                      ++++|+|.+++.++.....|+..+.. ....+.|++||+||+|+....  ...+...     .+...++++++|||++|+
T Consensus        87 ~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~e~SA~~g~  164 (182)
T d1moza_          87 AVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGAL--SASEVSKELNLVELKDRSWSIVASSAIKGE  164 (182)
T ss_dssp             EEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCC--CHHHHHHHTTTTTCCSSCEEEEEEBGGGTB
T ss_pred             eEEEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeecccccc--CHHHHHHHHHHHHHhhCCCEEEEEECCCCC
Confidence            99999999999999988887766543 355689999999999986432  2222222     122345679999999999


Q ss_pred             CHHHHHHHHHHHcCCC
Q 028884          183 NINQLFEEIAKRLPRP  198 (202)
Q Consensus       183 ~i~~~~~~l~~~i~~~  198 (202)
                      |++++|++|++.+.++
T Consensus       165 gv~e~~~~l~~~i~~~  180 (182)
T d1moza_         165 GITEGLDWLIDVIKEE  180 (182)
T ss_dssp             THHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHc
Confidence            9999999999988654

>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=99.96  E-value=2.5e-29  Score=176.77  Aligned_cols=158  Identities=22%  Similarity=0.389  Sum_probs=120.5

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ...+||+++|.++||||||+++|..+.+.. ..++....  ......  . .+.+.+||+||...++..+..+++.+|++
T Consensus        10 ~k~~kIvlvG~~~vGKTSli~rl~~~~~~~-~~~t~~~~--~~~~~~--~-~~~~~i~D~~g~~~~~~~~~~~~~~~~~i   83 (173)
T d1e0sa_          10 NKEMRILMLGLDAAGKTTILYKLKLGQSVT-TIPTVGFN--VETVTY--K-NVKFNVWDVGGQDKIRPLWRHYYTGTQGL   83 (173)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHTTCCCCEE-EEEETTEE--EEEEEE--T-TEEEEEEEESCCGGGHHHHGGGTTTCCEE
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCC-ccceeeee--EEEeec--c-ceeeEEecCCCcchhhhHHHhhhcccceE
Confidence            347999999999999999999999866432 22222222  222222  2 27899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHH-cCCCCCeEEEEEeCCCCCCCCCCChHHHHH-----HHHHcCCeEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQK-HGSPDIVMALVGNKADLHEKREVPAQDGIE-----YAEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~-~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~-----~~~~~~~~~~~~s~~~~~~i  184 (202)
                      |+|+|.++..++..+..|+..... ....+.|++|++||+|+.+...  ..+...     .+...++.+++|||++|+|+
T Consensus        84 i~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv  161 (173)
T d1e0sa_          84 IFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMK--PHEIQEKLGLTRIRDRNWYVQPSCATSGDGL  161 (173)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECBTTTTBTH
T ss_pred             EEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeeccccccccc--HHHHHHHHHHHHHHhCCCEEEEeeCCCCcCH
Confidence            999999999999988777766543 3456899999999999865322  222222     22233567999999999999


Q ss_pred             HHHHHHHHHHcC
Q 028884          185 NQLFEEIAKRLP  196 (202)
Q Consensus       185 ~~~~~~l~~~i~  196 (202)
                      .++|++|.+.++
T Consensus       162 ~e~~~~l~~~~k  173 (173)
T d1e0sa_         162 YEGLTWLTSNYK  173 (173)
T ss_dssp             HHHHHHHHHHCC
T ss_pred             HHHHHHHHHhcC
Confidence            999999998864

>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=99.95  E-value=9.3e-28  Score=166.09  Aligned_cols=156  Identities=19%  Similarity=0.347  Sum_probs=119.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEE
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVV  113 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v  113 (202)
                      +||+|+|++|||||||+++|.++++...........   ...   +...+.+.+||++|...+...+..++..+++++++
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~---~~~---~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   74 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNV---ETV---EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFV   74 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCCE---EEE---ECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceeeEE---EEE---eeeeEEEEEecCCCcccchhhhhhhhccceeEEEE
Confidence            689999999999999999999987755443322221   111   22337899999999999999999999999999999


Q ss_pred             EeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCCh---HHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 028884          114 YDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPA---QDGIEYAEKNGMFFIETSAKTADNINQLFE  189 (202)
Q Consensus       114 ~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~---~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~  189 (202)
                      +|.+++.++..+..|+..+... .....|+++++||.|+........   .....+++..++++++|||++|+|++++|+
T Consensus        75 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~~  154 (160)
T d1r8sa_          75 VDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLD  154 (160)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHH
T ss_pred             EEecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccccHHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHHH
Confidence            9999999998887777665543 456789999999999765432111   111123334567899999999999999999


Q ss_pred             HHHHHc
Q 028884          190 EIAKRL  195 (202)
Q Consensus       190 ~l~~~i  195 (202)
                      +|.+++
T Consensus       155 ~l~~~l  160 (160)
T d1r8sa_         155 WLSNQL  160 (160)
T ss_dssp             HHHHHC
T ss_pred             HHHhcC
Confidence            999875

>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=99.94  E-value=8.4e-26  Score=159.23  Aligned_cols=160  Identities=18%  Similarity=0.151  Sum_probs=110.3

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc-cccceeEEEEEEEecCCcEEEEEEEeCCChh--------hhhhccc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK-VTVGASFLSQTIALQDSTTVKFEIWDTAGQE--------RYAALAP  101 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~  101 (202)
                      .+.-.|+|+|.+|+|||||+|+|++........ +..+...........+   ..+.+|||||..        .+.....
T Consensus         3 ~~~~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~---~~~~~~DtpG~~~~~~~~~~~~~~~~~   79 (178)
T d1wf3a1           3 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR---RQIVFVDTPGLHKPMDALGEFMDQEVY   79 (178)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT---EEEEEEECCCCCCCCSHHHHHHHHHHH
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeee---eeeeecccccccccccccchhcccccc
Confidence            345579999999999999999999876543332 2222222222233322   589999999953        2333344


Q ss_pred             ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc-CCeEEEeccCC
Q 028884          102 LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN-GMFFIETSAKT  180 (202)
Q Consensus       102 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~s~~~  180 (202)
                      .++..+|++|+|+|++++..... ..|+..++.. ..++|+++|+||+|+.+..   .+....+.... ...++++||++
T Consensus        80 ~~~~~ad~il~v~D~~~~~~~~~-~~i~~~l~~~-~~~~piilv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~iSA~~  154 (178)
T d1wf3a1          80 EALADVNAVVWVVDLRHPPTPED-ELVARALKPL-VGKVPILLVGNKLDAAKYP---EEAMKAYHELLPEAEPRMLSALD  154 (178)
T ss_dssp             HHTSSCSEEEEEEETTSCCCHHH-HHHHHHHGGG-TTTSCEEEEEECGGGCSSH---HHHHHHHHHTSTTSEEEECCTTC
T ss_pred             cccccccceeeeechhhhhcccc-cchhhheecc-ccchhhhhhhcccccccCH---HHHHHHHHhhcccCceEEEecCC
Confidence            56788999999999998743322 4444555544 4578999999999986532   22233334444 35689999999


Q ss_pred             CCCHHHHHHHHHHHcCCC
Q 028884          181 ADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       181 ~~~i~~~~~~l~~~i~~~  198 (202)
                      |.|+++++++|++.+.+.
T Consensus       155 ~~gi~~L~~~i~~~lpe~  172 (178)
T d1wf3a1         155 ERQVAELKADLLALMPEG  172 (178)
T ss_dssp             HHHHHHHHHHHHTTCCBC
T ss_pred             CCCHHHHHHHHHHhCCCC
Confidence            999999999999998754

>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=99.93  E-value=4.1e-26  Score=160.46  Aligned_cols=158  Identities=22%  Similarity=0.337  Sum_probs=115.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++.+||+|+|.+|||||||+++|.++.+..... +...  ........+   +.+.+||+++.+.+...+..++..++++
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~~~-~~~~--~~~~~~~~~---~~~~~~d~~~~~~~~~~~~~~~~~~~~~   86 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVHTSP-TIGS--NVEEIVINN---TRFLMWDIGGQESLRSSWNTYYTNTEFV   86 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEEEEC-CSCS--SCEEEEETT---EEEEEEECCC----CGGGHHHHTTCCEE
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCcccc-ccce--eEEEEeecc---eEEEEeccccccccccchhhhhccceee
Confidence            567999999999999999999999977643322 1111  122222222   7899999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHH-----HHcCCeEEEeccCCCCCH
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYA-----EKNGMFFIETSAKTADNI  184 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~s~~~~~~i  184 (202)
                      ++++|.++..++.....++...... .....|+++|+||+|+.....  ..+.....     ...+++++++||++|+|+
T Consensus        87 i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi  164 (177)
T d1zj6a1          87 IVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMT--VAEISQFLKLTSIKDHQWHIQACCALTGEGL  164 (177)
T ss_dssp             EEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCCSSCEEEEECBTTTTBTH
T ss_pred             eeecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCc--HHHHHHHHHHHhhHhcCCEEEEEeCCCCCCH
Confidence            9999999998888776655544332 456899999999999865432  22222222     224567999999999999


Q ss_pred             HHHHHHHHHHcC
Q 028884          185 NQLFEEIAKRLP  196 (202)
Q Consensus       185 ~~~~~~l~~~i~  196 (202)
                      +++|++|.++++
T Consensus       165 ~e~~~~L~~~lk  176 (177)
T d1zj6a1         165 CQGLEWMMSRLK  176 (177)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhC
Confidence            999999999875

>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=99.93  E-value=5.5e-25  Score=153.12  Aligned_cols=162  Identities=20%  Similarity=0.362  Sum_probs=121.3

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      .++||+++|.+|||||||+++|.++.+.... ++..  ........  .. +.+.+||.+|...+...+.......++++
T Consensus         4 ke~kI~ivG~~~vGKSSLi~~~~~~~~~~~~-~~~~--~~~~~~~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   77 (169)
T d1upta_           4 REMRILILGLDGAGKTTILYRLQVGEVVTTI-PTIG--FNVETVTY--KN-LKFQVWDLGGLTSIRPYWRCYYSNTDAVI   77 (169)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCCCC-CCSS--EEEEEEEE--TT-EEEEEEEECCCGGGGGGGGGGCTTCSEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCCccee-cccc--eeeeeecc--Cc-eEEEEeeccccccccccchhhhhhhhhhh
Confidence            4699999999999999999999998875432 2222  22222222  22 68999999999999999999999999999


Q ss_pred             EEEeCCChhHHHHHHHHHHH-HHHcCCCCCeEEEEEeCCCCCCCCCC---ChHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 028884          112 VVYDITSPDSFNKAQYWVKE-LQKHGSPDIVMALVGNKADLHEKREV---PAQDGIEYAEKNGMFFIETSAKTADNINQL  187 (202)
Q Consensus       112 ~v~d~~~~~s~~~~~~~~~~-i~~~~~~~~p~ivv~nK~D~~~~~~~---~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~  187 (202)
                      +++|..+..++.....++.. +........|+++++||.|+......   .......++....++++++||++|.|++++
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~  157 (169)
T d1upta_          78 YVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEA  157 (169)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHH
T ss_pred             hhhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHH
Confidence            99999988777776554444 44445567899999999998654321   111112233445678999999999999999


Q ss_pred             HHHHHHHcCCCC
Q 028884          188 FEEIAKRLPRPS  199 (202)
Q Consensus       188 ~~~l~~~i~~~~  199 (202)
                      |++|++.+.+++
T Consensus       158 ~~~l~~~l~~k~  169 (169)
T d1upta_         158 MEWLVETLKSRQ  169 (169)
T ss_dssp             HHHHHHHHHTCC
T ss_pred             HHHHHHHHHhCC
Confidence            999999987653

>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=99.92  E-value=5.1e-25  Score=152.59  Aligned_cols=151  Identities=22%  Similarity=0.301  Sum_probs=108.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCc-cccceeEEEEEEEecCCcEEEEEEEeCCChhh--------hhhcccccc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSK-VTVGASFLSQTIALQDSTTVKFEIWDTAGQER--------YAALAPLYY  104 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~  104 (202)
                      ++|+++|.+|+|||||+|+|++........ +..........+...+   ..+.++|++|...        .......++
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~   78 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG---MPLHIIDTAGLREASDEVERIGIERAWQEI   78 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT---EEEEEEECCCCSCCSSHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccC---ceeeeccccccccccccchhHHHHHHHHHH
Confidence            799999999999999999999876543322 2223233233333333   5788999999432        112334557


Q ss_pred             cCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCH
Q 028884          105 RGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       105 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i  184 (202)
                      ..+|++++++|..+..++.....|...+... ....|+++|+||+|+........       ...+.+++++||++|.|+
T Consensus        79 ~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~-~~~~~iilv~NK~Dl~~~~~~~~-------~~~~~~~~~iSAk~~~gi  150 (161)
T d2gj8a1          79 EQADRVLFMVDGTTTDAVDPAEIWPEFIARL-PAKLPITVVRNKADITGETLGMS-------EVNGHALIRLSARTGEGV  150 (161)
T ss_dssp             HTCSEEEEEEETTTCCCCSHHHHCHHHHHHS-CTTCCEEEEEECHHHHCCCCEEE-------EETTEEEEECCTTTCTTH
T ss_pred             Hhccccceeeccccccchhhhhhhhhhhhhc-ccccceeeccchhhhhhhHHHHH-------HhCCCcEEEEECCCCCCH
Confidence            7899999999999887666666666656555 45789999999999865432211       124567999999999999


Q ss_pred             HHHHHHHHHHc
Q 028884          185 NQLFEEIAKRL  195 (202)
Q Consensus       185 ~~~~~~l~~~i  195 (202)
                      ++++++|++.+
T Consensus       151 ~~L~~~l~~~l  161 (161)
T d2gj8a1         151 DVLRNHLKQSM  161 (161)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHhhC
Confidence            99999999875

>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=99.91  E-value=2.1e-23  Score=144.27  Aligned_cols=151  Identities=19%  Similarity=0.270  Sum_probs=114.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVY  114 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~  114 (202)
                      ||+++|++|+|||||+++|.++.+.. ..++....  .......+   ..+.+||++|...+...+..+...++++++++
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~~-~~~t~~~~--~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   75 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLAT-LQPTWHPT--SEELAIGN---IKFTTFDLGGHIQARRLWKDYFPEVNGIVFLV   75 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCC-CCCCCSCE--EEEECCTT---CCEEEEECCCSGGGGGGGGGGCTTCSEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCe-eeceeeEe--EEEeccCC---eeEEEEeeccchhhhhhHhhhhhheeeeeeec
Confidence            79999999999999999999987643 23333322  22232222   56889999999999999999999999999999


Q ss_pred             eCCChhHHHHHHHHHHHHHHc-CCCCCeEEEEEeCCCCCCCCCCChHHHHHHH------------HHcCCeEEEeccCCC
Q 028884          115 DITSPDSFNKAQYWVKELQKH-GSPDIVMALVGNKADLHEKREVPAQDGIEYA------------EKNGMFFIETSAKTA  181 (202)
Q Consensus       115 d~~~~~s~~~~~~~~~~i~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~------------~~~~~~~~~~s~~~~  181 (202)
                      |.++..++.....|+...... ...+.|+++++||.|+....  ...+.....            ....+.+++|||++|
T Consensus        76 d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg  153 (166)
T d2qtvb1          76 DAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAV--SEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMR  153 (166)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCC--CHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTT
T ss_pred             cccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccccC--CHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCC
Confidence            999998888776666655443 56788999999999975432  223322222            122456999999999


Q ss_pred             CCHHHHHHHHHH
Q 028884          182 DNINQLFEEIAK  193 (202)
Q Consensus       182 ~~i~~~~~~l~~  193 (202)
                      +|++++|++|.+
T Consensus       154 ~Gv~e~~~~l~~  165 (166)
T d2qtvb1         154 NGYLEAFQWLSQ  165 (166)
T ss_dssp             BSHHHHHHHHTT
T ss_pred             CCHHHHHHHHhC
Confidence            999999999975

>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=99.91  E-value=4.2e-24  Score=150.68  Aligned_cols=159  Identities=16%  Similarity=0.110  Sum_probs=106.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhh-------hhcccccccCc
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY-------AALAPLYYRGA  107 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~~~~~  107 (202)
                      +|+++|.+|||||||+|+|++...........+............+  ..+.+||+||....       .......+..+
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~   80 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEE--ERFTLADIPGIIEGASEGKGLGLEFLRHIART   80 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSSS--CEEEEEECCCCCCCGGGSCCSCHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeeceeeecCC--CeEEEcCCCeeecCchHHHHHHHHHHHHHHhh
Confidence            5999999999999999999986644333333333333333333333  47889999994321       11122346678


Q ss_pred             cEEEEEEeCCCh--hHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCHH
Q 028884          108 AVAVVVYDITSP--DSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNIN  185 (202)
Q Consensus       108 d~~i~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~  185 (202)
                      +++++++|....  ........|+...... ..++|+++|+||+|+.....  ..+........+.+++.+||++|.|++
T Consensus        81 ~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~-~~~~p~iiv~NK~D~~~~~~--~~~~~~~~~~~~~~~~~iSA~tg~gid  157 (180)
T d1udxa2          81 RVLLYVLDAADEPLKTLETLRKEVGAYDPA-LLRRPSLVALNKVDLLEEEA--VKALADALAREGLAVLPVSALTGAGLP  157 (180)
T ss_dssp             SEEEEEEETTSCHHHHHHHHHHHHHHHCHH-HHHSCEEEEEECCTTSCHHH--HHHHHHHHHTTTSCEEECCTTTCTTHH
T ss_pred             hhhhhhcccccccccchhhhhhhhhccccc-cchhhhhhhhhhhhhhhHHH--HHHHHHHHHhcCCeEEEEEcCCCCCHH
Confidence            999999998754  2333334444332221 23578999999999866432  234445556678899999999999999


Q ss_pred             HHHHHHHHHcCCC
Q 028884          186 QLFEEIAKRLPRP  198 (202)
Q Consensus       186 ~~~~~l~~~i~~~  198 (202)
                      ++++.|.+.+...
T Consensus       158 ~L~~~i~~~l~~~  170 (180)
T d1udxa2         158 ALKEALHALVRST  170 (180)
T ss_dssp             HHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhhc
Confidence            9999998887543

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.90  E-value=7.5e-25  Score=156.66  Aligned_cols=160  Identities=20%  Similarity=0.187  Sum_probs=121.6

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +++||+++|..|||||||+++|..+.+.  +.+|.+.....  +..  .. +.+++||++|++.++..|..+++.+++++
T Consensus         1 ke~Kiv~lG~~~vGKTsll~r~~~~~~~--~~pTiG~~~~~--~~~--~~-~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   73 (200)
T d2bcjq2           1 RELKLLLLGTGESGKSTFIKQMRIIHGS--GVPTTGIIEYP--FDL--QS-VIFRMVDVGGQRSERRKWIHCFENVTSIM   73 (200)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTSS--CCCCCSCEEEE--EEC--SS-CEEEEEECCCSTTGGGGGGGGCSSCSEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCCCCC--CCceeeEEEEE--Eec--cc-eeeeeccccccccccccccccccccceee
Confidence            4799999999999999999999988763  45666654422  222  22 68999999999999999999999999999


Q ss_pred             EEEeCCChh-----------HHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC----------------CCCChHHHHH
Q 028884          112 VVYDITSPD-----------SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK----------------REVPAQDGIE  164 (202)
Q Consensus       112 ~v~d~~~~~-----------s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~----------------~~~~~~~~~~  164 (202)
                      +++|.++..           .++....|...+......+.|+++++||.|+.+.                ..........
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (200)
T d2bcjq2          74 FLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAARE  153 (200)
T ss_dssp             EEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHH
T ss_pred             EeeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHH
Confidence            999998753           3455677888787776778999999999997421                1122222222


Q ss_pred             HHHH----------cCCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          165 YAEK----------NGMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       165 ~~~~----------~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      +...          ..+.++++||++|.|+.++|+.|.+.|.++
T Consensus       154 ~i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~~  197 (200)
T d2bcjq2         154 FILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  197 (200)
T ss_dssp             HHHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHHH
Confidence            2221          234478999999999999999999888654

>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=99.90  E-value=1.4e-23  Score=149.41  Aligned_cols=156  Identities=19%  Similarity=0.272  Sum_probs=113.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +++||+++|..|||||||+++|....++..+     .  ....+..  .. +.+++||++|++.++..+..+++.+++++
T Consensus         1 ~e~KivllG~~~vGKTsl~~r~~~~~~~t~~-----~--~~~~~~~--~~-~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i   70 (195)
T d1svsa1           1 REVKLLLLGAGESGKSTIVKQMKIIHEAGTG-----I--VETHFTF--KD-LHFKMFDVGGQRSERKKWIHCFEGVTAII   70 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHSCCCS-----E--EEEEEEE--TT-EEEEEEEECCSGGGGGGGGGGCTTCSEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCCCCCcc-----E--EEEEEEe--ee-eeeeeeccccccccccchhhcccCCceee
Confidence            4689999999999999999999886654322     1  1222222  22 78999999999999999999999999999


Q ss_pred             EEEeCCChhHH-----------HHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC---------------CCCChHHHHHH
Q 028884          112 VVYDITSPDSF-----------NKAQYWVKELQKHGSPDIVMALVGNKADLHEK---------------REVPAQDGIEY  165 (202)
Q Consensus       112 ~v~d~~~~~s~-----------~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~---------------~~~~~~~~~~~  165 (202)
                      +|+|.++..++           +....|...+........|+++++||+|+...               ......+....
T Consensus        71 ~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (195)
T d1svsa1          71 FCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAY  150 (195)
T ss_dssp             EEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHH
T ss_pred             eEEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHH
Confidence            99999887654           23345555555555678999999999995211               11111222111


Q ss_pred             HH----H-------cCCeEEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          166 AE----K-------NGMFFIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       166 ~~----~-------~~~~~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      ..    .       ..+.++++||+++.|++++|+.+.+.|.+
T Consensus       151 ~~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~  193 (195)
T d1svsa1         151 IQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIK  193 (195)
T ss_dssp             HHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHHh
Confidence            11    1       23457789999999999999999987754

>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=99.90  E-value=1.2e-22  Score=143.24  Aligned_cols=157  Identities=15%  Similarity=0.194  Sum_probs=110.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVA  110 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~  110 (202)
                      ++.+||+++|.+|||||||+++|.++.+.... ++.....  ..+.+.+   ..+.+||+.+...+...+..+.+..+++
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~~-~~~~~~~--~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHV-PTLHPTS--EELTIAG---MTFTTFDLGGHIQARRVWKNYLPAINGI   84 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSC--EEEEETT---EEEEEEEECC----CCGGGGGGGGCSEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccee-cccccce--eEEEecc---cccccccccchhhhhhHHhhhhccccee
Confidence            55799999999999999999999998764332 2222222  2233332   5788999999999999999999999999


Q ss_pred             EEEEeCCChhHHHHHHHHHHHHH-HcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH-----------------cCCe
Q 028884          111 VVVYDITSPDSFNKAQYWVKELQ-KHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK-----------------NGMF  172 (202)
Q Consensus       111 i~v~d~~~~~s~~~~~~~~~~i~-~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----------------~~~~  172 (202)
                      ++++|.++...+.....++.... .....+.|+++++||.|+...  ....+.......                 .+++
T Consensus        85 ~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (186)
T d1f6ba_          85 VFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEA--ISEERLREMFGLYGQTTGKGSVSLKELNARPLE  162 (186)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTC--CCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEE
T ss_pred             eeeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCcccc--CCHHHHHHHHhhcccchhhhhhhHHHhhcCCCE
Confidence            99999999988877655444433 334568999999999997543  233333333321                 2346


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHc
Q 028884          173 FIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       173 ~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      +++|||++|+|++++|+||++.+
T Consensus       163 ~~~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         163 VFMCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             EEECBTTTTBSHHHHHHHHHTTC
T ss_pred             EEEEeCCCCCCHHHHHHHHHHhh
Confidence            89999999999999999999876

>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=99.89  E-value=4e-23  Score=145.48  Aligned_cols=161  Identities=15%  Similarity=0.087  Sum_probs=105.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccce-------eEEEEEEEecCCcEEEEEEEeCCChhhhhhccccc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGA-------SFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLY  103 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~  103 (202)
                      .+.++|+++|.+++|||||+|+|++.............       ......+..  .. ..+.++|++|+..+.......
T Consensus         3 ~k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~--~~-~~~~~~d~~g~~~~~~~~~~~   79 (179)
T d1wb1a4           3 FKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKL--EN-YRITLVDAPGHADLIRAVVSA   79 (179)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEE--TT-EEEEECCCSSHHHHHHHHHHH
T ss_pred             CCCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeecccccccccc--CC-ccccccccccccccccchhhh
Confidence            35789999999999999999999974322221111111       111111111  11 578899999999988888888


Q ss_pred             ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCCh--HHHHHHHHH----cCCeEEEec
Q 028884          104 YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPA--QDGIEYAEK----NGMFFIETS  177 (202)
Q Consensus       104 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~----~~~~~~~~s  177 (202)
                      +..+|++++++|+.++...+. ...+..+..   .++|+++|+||+|+........  +....+...    ...+++++|
T Consensus        80 l~~~d~~ilv~d~~~g~~~~~-~~~~~~~~~---~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iS  155 (179)
T d1wb1a4          80 ADIIDLALIVVDAKEGPKTQT-GEHMLILDH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPIS  155 (179)
T ss_dssp             TTSCCEEEEEEETTTCSCHHH-HHHHHHHHH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECC
T ss_pred             hhhccccccccccccccchhh-hhhhhhhhh---cCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEE
Confidence            999999999999998643322 222233333   3689999999999865432111  111122221    245799999


Q ss_pred             cCCCCCHHHHHHHHHHHcCCC
Q 028884          178 AKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       178 ~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      |++|+|++++++.|++.+.+.
T Consensus       156 A~~g~gi~eL~~~I~~~l~~~  176 (179)
T d1wb1a4         156 AKTGFGVDELKNLIITTLNNA  176 (179)
T ss_dssp             TTTCTTHHHHHHHHHHHHHHS
T ss_pred             ccCCcCHHHHHHHHHhcCCcc
Confidence            999999999999999987654

>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=99.89  E-value=2.4e-23  Score=145.56  Aligned_cols=156  Identities=21%  Similarity=0.183  Sum_probs=99.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCc-cccceeEEEEEEEecCCcEEEEEEEeCCChh---------hhhhcccccc
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSK-VTVGASFLSQTIALQDSTTVKFEIWDTAGQE---------RYAALAPLYY  104 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~~  104 (202)
                      .|+|+|.+|+|||||+++|++........ +..+.......+..  .. ..+.++|++|..         .+......++
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~--~~-~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~   78 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEW--YG-KTFKLVDTCGVFDNPQDIISQKMKEVTLNMI   78 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEE--TT-EEEEEEECTTTTSSGGGCCCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccCceeeccccccccc--cc-cccccccccceeeeecccccccccccccccc
Confidence            68999999999999999999865432222 22222222222222  22 679999999932         1233445557


Q ss_pred             cCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCH
Q 028884          105 RGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       105 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i  184 (202)
                      ..+|++++++|.+.+... ....++..++..   ++|+++|+||+|+.++.  ..+...++.+.....++++||++|.|+
T Consensus        79 ~~ad~i~~~~~~~~~~~~-~~~~~~~~l~~~---~~pviiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~i~iSAk~g~gi  152 (171)
T d1mkya1          79 READLVLFVVDGKRGITK-EDESLADFLRKS---TVDTILVANKAENLREF--EREVKPELYSLGFGEPIPVSAEHNINL  152 (171)
T ss_dssp             TTCSEEEEEEETTTCCCH-HHHHHHHHHHHH---TCCEEEEEESCCSHHHH--HHHTHHHHGGGSSCSCEECBTTTTBSH
T ss_pred             ccCcEEEEeecccccccc-cccccccccccc---cccccccchhhhhhhhh--hhHHHHHHHhcCCCCeEEEecCCCCCH
Confidence            789999999999876433 224455555544   57899999999976421  111122223333456899999999999


Q ss_pred             HHHHHHHHHHcCCCC
Q 028884          185 NQLFEEIAKRLPRPS  199 (202)
Q Consensus       185 ~~~~~~l~~~i~~~~  199 (202)
                      ++++++|.+.+.++.
T Consensus       153 d~L~~~i~~~l~e~~  167 (171)
T d1mkya1         153 DTMLETIIKKLEEKG  167 (171)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCCCCC
Confidence            999999999887654

>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=99.89  E-value=9.9e-23  Score=144.16  Aligned_cols=158  Identities=21%  Similarity=0.187  Sum_probs=103.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccce-eEEEEEEEecCCcEEEEEEEeCCChhhhh------------
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGA-SFLSQTIALQDSTTVKFEIWDTAGQERYA------------   97 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------------   97 (202)
                      +..+||+|+|.+|+|||||+|+|++...........+. ......+.+.+   ..+.++|+||.....            
T Consensus         6 ~~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~---~~~~~~d~~g~~~~~~~~~~~~~~~~~   82 (186)
T d1mkya2           6 TDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDG---RKYVFVDTAGLRRKSRVEPRTVEKYSN   82 (186)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETT---EEEEESSCSCC-----------CCSCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHCCCcceeecccccccccceeeeccCC---ceeeeeccCCccccccccccccccchh
Confidence            45799999999999999999999986543222221111 11112223322   468899999954321            


Q ss_pred             hcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH-----cCCe
Q 028884           98 ALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK-----NGMF  172 (202)
Q Consensus        98 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~  172 (202)
                      ......++.+|++++|+|++.+.. .....++..+...   +.|+++|+||+|+.........+.......     ...+
T Consensus        83 ~~~~~~~~~~dvii~v~d~~~~~~-~~~~~~~~~~~~~---~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (186)
T d1mkya2          83 YRVVDSIEKADVVVIVLDATQGIT-RQDQRMAGLMERR---GRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSP  158 (186)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTCCC-HHHHHHHHHHHHT---TCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSC
T ss_pred             HHHHHHHhcCCEEEEeecccccch-hhHHHHHHHHHHc---CCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCe
Confidence            223334567899999999987632 2334444444443   688999999999876655444444433332     2357


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHc
Q 028884          173 FIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       173 ~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      ++++||++|.|++++++.|.+.+
T Consensus       159 i~~vSa~~g~gv~~L~~~i~~~~  181 (186)
T d1mkya2         159 LIFTSADKGWNIDRMIDAMNLAY  181 (186)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHH
Confidence            99999999999999999997765

>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=99.88  E-value=8.2e-22  Score=140.52  Aligned_cols=166  Identities=19%  Similarity=0.197  Sum_probs=109.6

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc---ccccee--EEEEEEEe------------------cCCcEEEE
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK---VTVGAS--FLSQTIAL------------------QDSTTVKF   85 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~---~~~~~~--~~~~~~~~------------------~~~~~~~~   85 (202)
                      ++++.++|+++|+.++|||||+++|++........   ...+..  +.......                  .......+
T Consensus         1 ~~~~~inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (195)
T d1kk1a3           1 SRQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRV   80 (195)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEE
T ss_pred             CCCCcEEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeE
Confidence            35788999999999999999999998743221111   111111  11111110                  01112568


Q ss_pred             EEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC--hHHHH
Q 028884           86 EIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP--AQDGI  163 (202)
Q Consensus        86 ~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~  163 (202)
                      .++|+||+..|.......+..+|++++|+|+.++.......+.+..+....  ..++++++||+|+.+.....  .....
T Consensus        81 ~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~--~~~iiv~inK~D~~d~~~~~~~~~~~~  158 (195)
T d1kk1a3          81 SFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIG--QKNIIIAQNKIELVDKEKALENYRQIK  158 (195)
T ss_dssp             EEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHH
T ss_pred             eeeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhc--CccceeeeecccchhhHHHHHHHHHHH
Confidence            999999999998888888889999999999998743334444555555442  23578889999986542211  11122


Q ss_pred             HHHHHc---CCeEEEeccCCCCCHHHHHHHHHHHcC
Q 028884          164 EYAEKN---GMFFIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       164 ~~~~~~---~~~~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      .+....   .++++++||++|+|++++++.+.+.++
T Consensus       159 ~~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~iP  194 (195)
T d1kk1a3         159 EFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIP  194 (195)
T ss_dssp             HHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             HHhccccCCCCeEEEEECCCCCCHHHHHHHHHHHCc
Confidence            222222   367999999999999999999998874

>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=99.88  E-value=1.7e-21  Score=139.87  Aligned_cols=166  Identities=19%  Similarity=0.185  Sum_probs=108.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc-----cccceeEEEEEEEec-----------------------CCcE
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK-----VTVGASFLSQTIALQ-----------------------DSTT   82 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-----~~~~~~~~~~~~~~~-----------------------~~~~   82 (202)
                      ++.++|+++|+.++|||||+++|++........     ...............                       ....
T Consensus         6 ~p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (205)
T d2qn6a3           6 QPEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFL   85 (205)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEE
T ss_pred             CCCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccce
Confidence            567999999999999999999998632211100     000011111111110                       0112


Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCCh--H
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPA--Q  160 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~--~  160 (202)
                      ..+.++|+||+..|.......+..+|++|+|+|+.++....+.++.+..+....  -.|++|++||+|+........  .
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~~--i~~iIV~vNK~Dl~~~~~~~~~~~  163 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVVSKEEALSQYR  163 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTT--CCCEEEEEECGGGSCHHHHHHHHH
T ss_pred             EEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHcC--CceeeeccccCCCccchHHHHHHH
Confidence            478999999999998877778888999999999998732233344444444432  247899999999875432111  1


Q ss_pred             HHHHHHHH---cCCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          161 DGIEYAEK---NGMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       161 ~~~~~~~~---~~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      ....+...   ..++++++||++|.|++++++.|.+++++|
T Consensus       164 ~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~ip~P  204 (205)
T d2qn6a3         164 QIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYIKTP  204 (205)
T ss_dssp             HHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCCC
T ss_pred             HHHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhhCCCC
Confidence            11111111   146799999999999999999999999876

>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=99.87  E-value=1e-22  Score=143.78  Aligned_cols=151  Identities=25%  Similarity=0.227  Sum_probs=97.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChh---------------hhhhc
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE---------------RYAAL   99 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------------~~~~~   99 (202)
                      .|+++|.+|+|||||+|+|++.+......+..+...  ..+..  .   .+.++|+||..               .+...
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~~--~~~~~--~---~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~   74 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKI--IEIEW--K---NHKIIDMPGFGFMMGLPKEVQERIKDEIVHF   74 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSC--EEEEE--T---TEEEEECCCBSCCTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCEeecc--ccccc--c---cceecccCCceeccccccccccccchhhhhh
Confidence            689999999999999999998765433333233222  12222  1   26789999931               11222


Q ss_pred             ccccccCccEEEEEEeCCChhHHHHH----------HHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHc
Q 028884          100 APLYYRGAAVAVVVYDITSPDSFNKA----------QYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKN  169 (202)
Q Consensus       100 ~~~~~~~~d~~i~v~d~~~~~s~~~~----------~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~  169 (202)
                      .....+.+|++++|+|...+......          ...++.+..   .++|+++|+||+|+.+..+.   ....+....
T Consensus        75 ~~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~---~~~p~iiv~NK~D~~~~~~~---~~~~~~~~~  148 (184)
T d2cxxa1          75 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE---LDIPTIVAVNKLDKIKNVQE---VINFLAEKF  148 (184)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH---TTCCEEEEEECGGGCSCHHH---HHHHHHHHH
T ss_pred             hhhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHH---cCCCEEEEEeeeehhhhHHH---HHHHHHHHh
Confidence            34456778999999999865322211          122233333   37899999999997654321   111122222


Q ss_pred             -------CCeEEEeccCCCCCHHHHHHHHHHHcCCC
Q 028884          170 -------GMFFIETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       170 -------~~~~~~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                             ...++++||++|.|+++++++|.+.++++
T Consensus       149 ~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e~  184 (184)
T d2cxxa1         149 EVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRER  184 (184)
T ss_dssp             TCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             cccccccCCeEEEEECCCCCCHHHHHHHHHHHccCC
Confidence                   12388999999999999999999988653

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.87  E-value=2.9e-22  Score=143.20  Aligned_cols=158  Identities=18%  Similarity=0.218  Sum_probs=106.1

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      +.+||+++|.+|||||||+++|..   ...+.+|.+...  ..+....   ..+++||++|++.++..+..+++.+++++
T Consensus         1 r~iKivllG~~~vGKTsll~r~~f---~~~~~pTiG~~~--~~~~~~~---~~~~~~D~~gq~~~~~~~~~~~~~~~~~~   72 (200)
T d1zcba2           1 RLVKILLLGAGESGKSTFLKQMRI---IHGQDPTKGIHE--YDFEIKN---VPFKMVDVGGQRSERKRWFECFDSVTSIL   72 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH---HHSCCCCSSEEE--EEEEETT---EEEEEEEECC-------CTTSCTTCCEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhc---CCCCCCeeeeEE--EEEeeee---eeeeeecccceeeecccccccccccceeE
Confidence            368999999999999999999943   345566666443  2333322   78999999999999999999999999999


Q ss_pred             EEEeCCChhH----------HHHHHHHHHH-HHHcCCCCCeEEEEEeCCCCCCC----------------CCCChHHHHH
Q 028884          112 VVYDITSPDS----------FNKAQYWVKE-LQKHGSPDIVMALVGNKADLHEK----------------REVPAQDGIE  164 (202)
Q Consensus       112 ~v~d~~~~~s----------~~~~~~~~~~-i~~~~~~~~p~ivv~nK~D~~~~----------------~~~~~~~~~~  164 (202)
                      +++|.++..+          +.....++.. +......+.|+++++||+|+.++                .....+.+.+
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (200)
T d1zcba2          73 FLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQK  152 (200)
T ss_dssp             EEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHH
T ss_pred             EEEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHH
Confidence            9999987532          3333333333 33334568999999999997421                1112233333


Q ss_pred             HHHH-----------cCCeEEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          165 YAEK-----------NGMFFIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       165 ~~~~-----------~~~~~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                      +...           ..+.++++||+++.|++.+|+.+.+.|.+
T Consensus       153 ~~~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~  196 (200)
T d1zcba2         153 FLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILH  196 (200)
T ss_dssp             HHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHH
Confidence            3222           12446789999999999999999887654

>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=99.87  E-value=2.4e-22  Score=138.82  Aligned_cols=148  Identities=21%  Similarity=0.284  Sum_probs=98.0

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCc-cccceeEEEEEEEecCCcEEEEEEEeCCChhhhh---------hccccc
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSK-VTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA---------ALAPLY  103 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~~~  103 (202)
                      +||+++|.+|+|||||+|+|++........ +..+.......+...+   ..+.+||+||.....         ......
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~   77 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG---ILFRIVDTAGVRSETNDLVERLGIERTLQE   77 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT---EEEEEEESSCCCSSCCTTCCCCCHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCC---eeEEeccccccccCCccHHHHHHHHHHHHH
Confidence            699999999999999999999866433322 2222222222333332   679999999942210         112223


Q ss_pred             ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCC
Q 028884          104 YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADN  183 (202)
Q Consensus       104 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~  183 (202)
                      +..+|++++|+|++++.......-+ ..+     ...++++++||.|+.+...  .++. ........+++++||++|.|
T Consensus        78 ~~~ad~ii~v~d~~~~~~~~~~~~~-~~~-----~~~~~i~~~~k~d~~~~~~--~~~~-~~~~~~~~~~~~vSA~~g~g  148 (160)
T d1xzpa2          78 IEKADIVLFVLDASSPLDEEDRKIL-ERI-----KNKRYLVVINKVDVVEKIN--EEEI-KNKLGTDRHMVKISALKGEG  148 (160)
T ss_dssp             HHHCSEEEEEEETTSCCCHHHHHHH-HHH-----TTSSEEEEEEECSSCCCCC--HHHH-HHHHTCSTTEEEEEGGGTCC
T ss_pred             HHhCCEEEEEEeCCCCcchhhhhhh-hhc-----ccccceeeeeeccccchhh--hHHH-HHHhCCCCcEEEEECCCCCC
Confidence            5679999999999988654433221 111     2567999999999876432  2222 22223456799999999999


Q ss_pred             HHHHHHHHHH
Q 028884          184 INQLFEEIAK  193 (202)
Q Consensus       184 i~~~~~~l~~  193 (202)
                      +++++++|.+
T Consensus       149 i~~L~~~I~k  158 (160)
T d1xzpa2         149 LEKLEESIYR  158 (160)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999999876

>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=99.86  E-value=8.5e-22  Score=139.99  Aligned_cols=161  Identities=14%  Similarity=0.098  Sum_probs=110.1

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC-----C-----------CCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG-----Q-----------FDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER   95 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~-----~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   95 (202)
                      +.++|+++|+.++|||||+++|++.     .           ........++.+.....+.+  .. ..+.++|+||+..
T Consensus         2 p~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~--~~-~~~~~iDtPGh~~   78 (196)
T d1d2ea3           2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYST--AA-RHYAHTDCPGHAD   78 (196)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEEC--SS-CEEEEEECSSHHH
T ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEe--ce-eeEEeecCcchHH
Confidence            5799999999999999999999751     0           01111122222222222322  22 5799999999999


Q ss_pred             hhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCC---ChHHHHHHHHHc---
Q 028884           96 YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREV---PAQDGIEYAEKN---  169 (202)
Q Consensus        96 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~---~~~~~~~~~~~~---  169 (202)
                      |.......+..+|++|+|+|+.++.. ++..+.+..+....  ..|+||++||+|+....+.   ...+...+....   
T Consensus        79 f~~~~~~~~~~aD~allVVda~~G~~-~QT~~~~~~a~~~~--~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~  155 (196)
T d1d2ea3          79 YVKNMITGTAPLDGCILVVAANDGPM-PQTREHLLLARQIG--VEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYK  155 (196)
T ss_dssp             HHHHHHHTSSCCSEEEEEEETTTCSC-HHHHHHHHHHHHTT--CCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHhhcCeEEEEEEcCCCCc-hhHHHHHHHHHHhc--CCcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCC
Confidence            98888888899999999999998743 33344445554442  3568999999998653221   111233333333   


Q ss_pred             --CCeEEEeccCCC----------CCHHHHHHHHHHHcCCC
Q 028884          170 --GMFFIETSAKTA----------DNINQLFEEIAKRLPRP  198 (202)
Q Consensus       170 --~~~~~~~s~~~~----------~~i~~~~~~l~~~i~~~  198 (202)
                        .++++++|+++|          +++.++++.|.+.+..|
T Consensus       156 ~~~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~~iP~P  196 (196)
T d1d2ea3         156 GEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYIPVP  196 (196)
T ss_dssp             TTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSCCC
T ss_pred             cccCEEEEEEccccccccCcccccCCHHHHHHHHHhhCCCC
Confidence              256999999998          58999999999988754

>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=99.86  E-value=1.2e-22  Score=143.73  Aligned_cols=159  Identities=18%  Similarity=0.133  Sum_probs=101.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhc-------ccccccC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAAL-------APLYYRG  106 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-------~~~~~~~  106 (202)
                      .+|+++|.+|+|||||+|+|.+........+..+.........+.++.  .+.+||+||.......       ....+..
T Consensus         2 ~~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~~~~--~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~   79 (185)
T d1lnza2           2 ADVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDGR--SFVMADLPGLIEGAHQGVGLGHQFLRHIER   79 (185)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSSC--EEEEEEHHHHHHHTTCTTTTHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEecCCc--EEEEecCCCcccCchHHHHHHHHHHHHHHH
Confidence            369999999999999999999866543333333343333344444443  6889999996432211       1122345


Q ss_pred             ccEEEEEEeCCChhH---HHHHH--HHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH--cCCeEEEeccC
Q 028884          107 AAVAVVVYDITSPDS---FNKAQ--YWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK--NGMFFIETSAK  179 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s---~~~~~--~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~--~~~~~~~~s~~  179 (202)
                      ++.++++++......   .....  ............++|+++|+||+|+.+..    .....+...  .+.+++.+||+
T Consensus        80 ~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~----~~~~~~~~~~~~~~~v~~iSA~  155 (185)
T d1lnza2          80 TRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAV  155 (185)
T ss_dssp             CCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSC
T ss_pred             hhhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHH----HHHHHHHHHhccCCcEEEEECC
Confidence            788888887664321   11111  11122222234478999999999986532    222333333  36778999999


Q ss_pred             CCCCHHHHHHHHHHHcCCC
Q 028884          180 TADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i~~~  198 (202)
                      +|.|++++++.|.+.+.+.
T Consensus       156 ~g~Gi~~L~~~i~~~L~~~  174 (185)
T d1lnza2         156 TREGLRELLFEVANQLENT  174 (185)
T ss_dssp             CSSTTHHHHHHHHHHHTSC
T ss_pred             CCCCHHHHHHHHHHhhhhC
Confidence            9999999999999998654

>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=99.86  E-value=1.6e-21  Score=142.13  Aligned_cols=156  Identities=18%  Similarity=0.144  Sum_probs=100.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEe---------------cCCcEEEEEEEeCCChhhhhhcc
Q 028884           36 LVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIAL---------------QDSTTVKFEIWDTAGQERYAALA  100 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~i~D~~G~~~~~~~~  100 (202)
                      |+|+|++++|||||+++|++...........+..........               .......+.++||||+..|....
T Consensus         8 IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~~~   87 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTLR   87 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTSB
T ss_pred             EEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccccc
Confidence            999999999999999999875322111111111111111110               01112478999999999998888


Q ss_pred             cccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCCh--------------------H
Q 028884          101 PLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPA--------------------Q  160 (202)
Q Consensus       101 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~--------------------~  160 (202)
                      ...+..+|++|+|+|+.++-.... ...+..+...   ++|+++|+||+|+........                    .
T Consensus        88 ~~~~~~~D~~ilVvda~~g~~~~~-~~~~~~~~~~---~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~  163 (227)
T d1g7sa4          88 KRGGALADLAILIVDINEGFKPQT-QEALNILRMY---RTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDT  163 (227)
T ss_dssp             CSSSBSCSEEEEEEETTTCCCHHH-HHHHHHHHHT---TCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHHHH
T ss_pred             hhcccccceEEEEEecccCcccch-hHHHHHhhcC---CCeEEEEEECccCCCchhhhhhHHHHHhhhcchHHHHHHHHH
Confidence            888999999999999998643332 3333444433   689999999999865332110                    0


Q ss_pred             HHHHHHH---H---------------cCCeEEEeccCCCCCHHHHHHHHHHHc
Q 028884          161 DGIEYAE---K---------------NGMFFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       161 ~~~~~~~---~---------------~~~~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      .......   .               ..++++++||++|.|++++++.|.+..
T Consensus       164 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~  216 (227)
T d1g7sa4         164 KVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLA  216 (227)
T ss_dssp             HHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHH
Confidence            0000000   0               113689999999999999999987654

>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=99.86  E-value=7e-21  Score=135.57  Aligned_cols=158  Identities=16%  Similarity=0.135  Sum_probs=94.5

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChh-------------hh
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE-------------RY   96 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-------------~~   96 (202)
                      .+...+|+|+|.+|+|||||+|+|++...........+.......... ..   .+.+.|++|..             .+
T Consensus        20 ~~~~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~-~~---~~~~~d~~~~~~~~~~~~~~~~~~~~   95 (195)
T d1svia_          20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYII-ND---ELHFVDVPGYGFAKVSKSEREAWGRM   95 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEE-TT---TEEEEECCCBCCCSSCHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeecccccc-cc---cceEEEEEeeccccccccccchhhhH
Confidence            344558999999999999999999985432121111111111111222 22   24456666511             11


Q ss_pred             hhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHH----cCCe
Q 028884           97 AALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEK----NGMF  172 (202)
Q Consensus        97 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~----~~~~  172 (202)
                      ..........+|++++++|++.+.. ....++++.+...   ++|+++|+||+|+.+.... .+....+...    ...+
T Consensus        96 ~~~~~~~~~~~~~vi~viD~~~~~~-~~~~~~~~~l~~~---~~piivv~NK~D~~~~~~~-~~~~~~~~~~l~~~~~~~  170 (195)
T d1svia_          96 IETYITTREELKAVVQIVDLRHAPS-NDDVQMYEFLKYY---GIPVIVIATKADKIPKGKW-DKHAKVVRQTLNIDPEDE  170 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCC-HHHHHHHHHHHHT---TCCEEEEEECGGGSCGGGH-HHHHHHHHHHHTCCTTSE
T ss_pred             Hhhhhccccchhhhhhhhhcccccc-ccccccccccccc---cCcceechhhccccCHHHH-HHHHHHHHHHhcccCCCC
Confidence            1223344566899999999987632 2224455555544   6789999999998654322 1122222222    4557


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHcC
Q 028884          173 FIETSAKTADNINQLFEEIAKRLP  196 (202)
Q Consensus       173 ~~~~s~~~~~~i~~~~~~l~~~i~  196 (202)
                      ++.+||++|.|+++++++|.+.+.
T Consensus       171 ~~~~SA~~~~gi~el~~~i~~~l~  194 (195)
T d1svia_         171 LILFSSETKKGKDEAWGAIKKMIN  194 (195)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHhC
Confidence            999999999999999999998874

>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=99.84  E-value=3.1e-20  Score=130.23  Aligned_cols=163  Identities=17%  Similarity=0.142  Sum_probs=105.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChh---------hhhhccc
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE---------RYAALAP  101 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~  101 (202)
                      .+.-.|+|+|.+|+|||||+|+|++...........+...........+.  ..+..+|++|..         .......
T Consensus         3 ~~~~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (179)
T d1egaa1           3 SYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAAS   80 (179)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCTT
T ss_pred             ccccEEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCC--ceeEeecCCCceecchhhhhhhhhhccc
Confidence            44567999999999999999999987654343333333232222222222  466778888732         1223334


Q ss_pred             ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcC-CeEEEeccCC
Q 028884          102 LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNG-MFFIETSAKT  180 (202)
Q Consensus       102 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~s~~~  180 (202)
                      .....+|+++++.|..+...  ....+...+.   ....|.++|+||.|..............+...++ .+++++||++
T Consensus        81 ~~~~~~~~~l~~~d~~~~~~--~~~~~~~~l~---~~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~  155 (179)
T d1egaa1          81 SSIGDVELVIFVVEGTRWTP--DDEMVLNKLR---EGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAET  155 (179)
T ss_dssp             SCCCCEEEEEEEEETTCCCH--HHHHHHHHHH---SSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTT
T ss_pred             cchhhcceeEEEEecCccch--hHHHHHHHhh---hccCceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCEEEEeCcC
Confidence            44556788889999876532  2222223333   2356789999999987654333344444444444 5799999999


Q ss_pred             CCCHHHHHHHHHHHcCCCCC
Q 028884          181 ADNINQLFEEIAKRLPRPSP  200 (202)
Q Consensus       181 ~~~i~~~~~~l~~~i~~~~~  200 (202)
                      |.|++++++.|.+.+++..+
T Consensus       156 g~gi~~L~~~i~~~lpe~~~  175 (179)
T d1egaa1         156 GLNVDTIAAIVRKHLPEATH  175 (179)
T ss_dssp             TTTHHHHHHHHHTTCCBCCC
T ss_pred             CCCHHHHHHHHHHhCCCCCC
Confidence            99999999999999977543

>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=99.84  E-value=8.9e-20  Score=130.94  Aligned_cols=118  Identities=17%  Similarity=0.254  Sum_probs=86.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhh-hcccccccCccEEEEE
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYA-ALAPLYYRGAAVAVVV  113 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~~i~v  113 (202)
                      +|+|+|++|+|||||+++|.++.+.... ++.+...  ..+.+.+...+.+.+||++|++.++ ..+..++..++++++|
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~~-~t~~~~~--~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v   78 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSS--AIYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFV   78 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCBC-CCCSCEE--EEEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCccc-CCeeEEE--EEEEEeeeeeeeeeeeeccccccccchhhhhhhhhccccceE
Confidence            6999999999999999999998875543 3444433  3344444555789999999998875 5677888999999999


Q ss_pred             EeCCChhHH-HHHHHHH-HHHHH--cCCCCCeEEEEEeCCCCCCCC
Q 028884          114 YDITSPDSF-NKAQYWV-KELQK--HGSPDIVMALVGNKADLHEKR  155 (202)
Q Consensus       114 ~d~~~~~s~-~~~~~~~-~~i~~--~~~~~~p~ivv~nK~D~~~~~  155 (202)
                      +|.++..++ .....++ ..+..  .....+|++||+||+|+....
T Consensus        79 ~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a~  124 (207)
T d2fh5b1          79 VDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAK  124 (207)
T ss_dssp             EETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCC
T ss_pred             EEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCCC
Confidence            999997653 4443443 33322  234568999999999987543

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.82  E-value=1.3e-20  Score=136.76  Aligned_cols=157  Identities=19%  Similarity=0.220  Sum_probs=110.3

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhcccccccCccEEE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAV  111 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i  111 (202)
                      ...||+++|..|||||||+++|..+.+    .+|.+...  ..+.+.+   +.+++||++|++.++..|..++..+++++
T Consensus         5 ~~~KilllG~~~vGKTsll~~~~~~~~----~pTiG~~~--~~~~~~~---~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii   75 (221)
T d1azta2           5 ATHRLLLLGAGESGKSTIVKQMRILHV----VLTSGIFE--TKFQVDK---VNFHMFDVGGQRDERRKWIQCFNDVTAII   75 (221)
T ss_dssp             HSEEEEEECSTTSSHHHHHHHHHHHHC----CCCCSCEE--EEEEETT---EEEEEEECCCSTTTTTGGGGGCTTCSEEE
T ss_pred             hcCEEEEECCCCCCHHHHHHHHhcCCc----CCCCCeEE--EEEEECc---EEEEEEecCccceeccchhhhcccccceE
Confidence            468999999999999999999987554    24444333  3344433   78999999999999999999999999999


Q ss_pred             EEEeCCChh----------HHHH-HHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCC------------------------
Q 028884          112 VVYDITSPD----------SFNK-AQYWVKELQKHGSPDIVMALVGNKADLHEKRE------------------------  156 (202)
Q Consensus       112 ~v~d~~~~~----------s~~~-~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~------------------------  156 (202)
                      +++|.++..          .+.+ ...|...+......++|++|++||+|+.++..                        
T Consensus        76 ~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~  155 (221)
T d1azta2          76 FVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDAT  155 (221)
T ss_dssp             EEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCC
T ss_pred             EEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCccccc
Confidence            999998542          2333 23344444443446899999999999743110                        


Q ss_pred             ------CChHHHHHHHHH-------------cCCeEEEeccCCCCCHHHHHHHHHHHcCC
Q 028884          157 ------VPAQDGIEYAEK-------------NGMFFIETSAKTADNINQLFEEIAKRLPR  197 (202)
Q Consensus       157 ------~~~~~~~~~~~~-------------~~~~~~~~s~~~~~~i~~~~~~l~~~i~~  197 (202)
                            ....++..+...             ..+-.+++||.++.|++.+|+.+.+.|.+
T Consensus       156 ~~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~  215 (221)
T d1azta2         156 PEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQR  215 (221)
T ss_dssp             CCTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHH
T ss_pred             ccCCCchhHHHHHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHH
Confidence                  001222222211             11335689999999999999998777654

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.80  E-value=5.7e-20  Score=131.48  Aligned_cols=142  Identities=11%  Similarity=0.064  Sum_probs=92.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC------C--CC---------CCCccccceeEEEEEEEecCCcEEEEEEEeCCChh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG------Q--FD---------PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE   94 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~------~--~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   94 (202)
                      +.+||+++|++++|||||+++|+..      .  ..         .......+.+.....+.+.+   ..+.++||||+.
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~---~~i~iiDtPGh~   78 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAK---RHYSHVDCPGHA   78 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSS---CEEEEEECCCSG
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCC---eEEEEEeCCCch
Confidence            5799999999999999999999742      0  00         00011234444444444433   578999999999


Q ss_pred             hhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCCCCCC---ChHHHHHHHHHc-
Q 028884           95 RYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEKREV---PAQDGIEYAEKN-  169 (202)
Q Consensus        95 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~~~~~---~~~~~~~~~~~~-  169 (202)
                      .|.......+..+|++|+|+|+.++...+. .+.+..+...   ++| ++|++||+|+.+..+.   ...+...+.... 
T Consensus        79 df~~~~~~~~~~aD~avlVvda~~Gv~~qt-~~~~~~~~~~---gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~~  154 (204)
T d2c78a3          79 DYIKNMITGAAQMDGAILVVSAADGPMPQT-REHILLARQV---GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYE  154 (204)
T ss_dssp             GGHHHHHHHHTTCSSEEEEEETTTCCCHHH-HHHHHHHHHT---TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHCCEEEEEEECCCCCcHHH-HHHHHHHHHc---CCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhcC
Confidence            998888888999999999999998854433 3344444443   454 7788999998653221   112233333333 


Q ss_pred             ----CCeEEEeccCC
Q 028884          170 ----GMFFIETSAKT  180 (202)
Q Consensus       170 ----~~~~~~~s~~~  180 (202)
                          ..+++..|+..
T Consensus       155 ~~~~~i~~i~~sa~~  169 (204)
T d2c78a3         155 FPGDEVPVIRGSALL  169 (204)
T ss_dssp             SCTTTSCEEECCHHH
T ss_pred             CCcccceeeeeechh
Confidence                24578877653

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.76  E-value=1e-18  Score=127.62  Aligned_cols=148  Identities=14%  Similarity=0.142  Sum_probs=99.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC--CCC-----------------------------CCCccccceeEEEEEEEecC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG--QFD-----------------------------PTSKVTVGASFLSQTIALQD   79 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~--~~~-----------------------------~~~~~~~~~~~~~~~~~~~~   79 (202)
                      ++.++|+++|+.++|||||+.+|+..  ...                             ......++.+.....+.+.+
T Consensus         4 k~~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~   83 (239)
T d1f60a3           4 KSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK   83 (239)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSS
T ss_pred             CCccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccCC
Confidence            45689999999999999999999641  100                             00112344444444555444


Q ss_pred             CcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHH------HHHHHHHHHHHHcCCCCCe-EEEEEeCCCCC
Q 028884           80 STTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSF------NKAQYWVKELQKHGSPDIV-MALVGNKADLH  152 (202)
Q Consensus        80 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~------~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~  152 (202)
                         +.+.++|+||+..|.......+..+|++|+|+|+..+.--      .+..+.+......   ++| +||++||+|+.
T Consensus        84 ---~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~~---gv~~iiv~iNKmD~~  157 (239)
T d1f60a3          84 ---YQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTL---GVRQLIVAVNKMDSV  157 (239)
T ss_dssp             ---EEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHT---TCCEEEEEEECGGGG
T ss_pred             ---EEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHHHHHHHc---CCCeEEEEEECCCCC
Confidence               6899999999999998888889999999999999976311      1334333444443   444 78899999986


Q ss_pred             CCCCCC----hHHHHHHHHHcC-----CeEEEeccCCCCCH
Q 028884          153 EKREVP----AQDGIEYAEKNG-----MFFIETSAKTADNI  184 (202)
Q Consensus       153 ~~~~~~----~~~~~~~~~~~~-----~~~~~~s~~~~~~i  184 (202)
                      +.....    ..+...+....+     ++++.+|+..|.|+
T Consensus       158 ~~d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni  198 (239)
T d1f60a3         158 KWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNM  198 (239)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTT
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCcc
Confidence            543221    122333333333     45899999999876

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=99.75  E-value=1.3e-17  Score=120.27  Aligned_cols=150  Identities=20%  Similarity=0.210  Sum_probs=96.9

Q ss_pred             CCCceeeEEEEcCCCCcHHHHHHHHHhCC--CCC-------------------------------CCccccceeEEEEEE
Q 028884           29 AKNLRVKLVLLGDSGVGKSCIVLRFVRGQ--FDP-------------------------------TSKVTVGASFLSQTI   75 (202)
Q Consensus        29 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~--~~~-------------------------------~~~~~~~~~~~~~~~   75 (202)
                      .++..+||+++|+.++|||||+++|+...  ...                               ......+.......+
T Consensus         5 ~~~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~~   84 (222)
T d1zunb3           5 ERKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYF   84 (222)
T ss_dssp             TSCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEE
T ss_pred             ccCCcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEEE
Confidence            34578999999999999999999997421  100                               000111122222222


Q ss_pred             EecCCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCe-EEEEEeCCCCCCC
Q 028884           76 ALQDSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIV-MALVGNKADLHEK  154 (202)
Q Consensus        76 ~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p-~ivv~nK~D~~~~  154 (202)
                      ..  .. ..+.++|+||+..|-......+..+|++|+|+|+..+...+ ..+.+..+...   +++ +++++||+|+.+.
T Consensus        85 ~~--~~-~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Q-t~e~~~~~~~~---gv~~iiv~vNK~D~~~~  157 (222)
T d1zunb3          85 ST--AK-RKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQ-TRRHSYIASLL---GIKHIVVAINKMDLNGF  157 (222)
T ss_dssp             EC--SS-EEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHH-HHHHHHHHHHT---TCCEEEEEEECTTTTTS
T ss_pred             ec--cc-eEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccc-hHHHHHHHHHc---CCCEEEEEEEccccccc
Confidence            22  22 68999999999999888888888999999999999874333 33333334433   433 7888999998764


Q ss_pred             CCCCh----HHHHHHHHHcC-----CeEEEeccCCCCCHH
Q 028884          155 REVPA----QDGIEYAEKNG-----MFFIETSAKTADNIN  185 (202)
Q Consensus       155 ~~~~~----~~~~~~~~~~~-----~~~~~~s~~~~~~i~  185 (202)
                      .+...    .+...+....+     ++++++||++|.|+.
T Consensus       158 ~~~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~  197 (222)
T d1zunb3         158 DERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVV  197 (222)
T ss_dssp             CHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTS
T ss_pred             cceehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCC
Confidence            33222    22333444433     357999999999874

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.73  E-value=9.9e-18  Score=120.04  Aligned_cols=116  Identities=14%  Similarity=0.185  Sum_probs=79.5

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhhccccc----ccCc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAALAPLY----YRGA  107 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~----~~~~  107 (202)
                      ++.+|+++|.+|+|||||+|+|.++.+.+    +.+.......+...+   ..+.+||+||+..+...+..+    ...+
T Consensus         2 ~~p~V~lvG~~n~GKTSLln~l~~~~~~~----~tt~~~~~~~~~~~~---~~~~l~D~~g~~~~~~~~~~~~~~~~~~~   74 (209)
T d1nrjb_           2 YQPSIIIAGPQNSGKTSLLTLLTTDSVRP----TVVSQEPLSAADYDG---SGVTLVDFPGHVKLRYKLSDYLKTRAKFV   74 (209)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCCC----BCCCSSCEEETTGGG---SSCEEEECCCCGGGTHHHHHHHHHHGGGE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCC----eEEecceEEEEEeCC---eEEEEEecccccchhhHHHHHHHHHhhhc
Confidence            46799999999999999999999976543    222222222222222   468999999988765544443    4456


Q ss_pred             cEEEEEEeCCC-hhHHHHHHHHH----HHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884          108 AVAVVVYDITS-PDSFNKAQYWV----KELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus       108 d~~i~v~d~~~-~~s~~~~~~~~----~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                      +.+++++|..+ ..++.....|+    ..+......++|+++|+||+|+...
T Consensus        75 ~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~  126 (209)
T d1nrjb_          75 KGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTA  126 (209)
T ss_dssp             EEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTC
T ss_pred             cccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeeccccc
Confidence            88888888774 44455554444    3444556678999999999998654

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.72  E-value=1e-16  Score=118.54  Aligned_cols=115  Identities=15%  Similarity=0.157  Sum_probs=81.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC--CCC----------------CCCccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG--QFD----------------PTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~--~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      +.-||+++|+.++|||||+.+++..  ...                .......+.......+.+.+   ..+.++||||+
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~---~~~n~iDtPG~   81 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD---HRINIIDAPGH   81 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETT---EEEEEECCCSS
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCC---eEEEEecCCch
Confidence            3457999999999999999999742  110                01111222333333444433   68999999999


Q ss_pred             hhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           94 ERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        94 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      ..|.......++.+|++|+|+|+.++-......-| +...   ..++|.++++||+|...
T Consensus        82 ~dF~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w-~~a~---~~~lP~i~fINKmDr~~  137 (276)
T d2bv3a2          82 VDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVW-RQAE---KYKVPRIAFANKMDKTG  137 (276)
T ss_dssp             SSCSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHH-HHHH---TTTCCEEEEEECTTSTT
T ss_pred             hhhHHHHHHHHHhhhheEEeccccCCcchhHHHHH-HHHH---HcCCCEEEEEecccccc
Confidence            99999889999999999999999998544444444 3333   44899999999999753

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.71  E-value=1.1e-17  Score=121.16  Aligned_cols=162  Identities=19%  Similarity=0.206  Sum_probs=100.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCC--C-----------------------------CCCCccccceeEEEEEEEecCC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQ--F-----------------------------DPTSKVTVGASFLSQTIALQDS   80 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~--~-----------------------------~~~~~~~~~~~~~~~~~~~~~~   80 (202)
                      +.++|+|+|+.++|||||+.+|+...  .                             ........+.......+...  
T Consensus         2 p~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~--   79 (224)
T d1jnya3           2 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETK--   79 (224)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECS--
T ss_pred             CccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEEecC--
Confidence            47899999999999999999986411  0                             00111112222222223222  


Q ss_pred             cEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHH------HHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884           81 TTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSF------NKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus        81 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~------~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                      . +.+.++|+||+..|.......+..+|++|+|+|+.++...      .+..+.+.......  ..++|+++||+|+...
T Consensus        80 ~-~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~--~~~iIv~iNK~D~~~~  156 (224)
T d1jnya3          80 K-YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMG--LDQLIVAVNKMDLTEP  156 (224)
T ss_dssp             S-CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTT--CTTCEEEEECGGGSSS
T ss_pred             C-ceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhC--CCceEEEEEcccCCCc
Confidence            2 6899999999999999888899999999999999987321      12333333333332  2458888999998643


Q ss_pred             CCCC--h----HHHHHHHHHc-----CCeEEEeccCCCCCHHH-----------HHHHHHHHcCCC
Q 028884          155 REVP--A----QDGIEYAEKN-----GMFFIETSAKTADNINQ-----------LFEEIAKRLPRP  198 (202)
Q Consensus       155 ~~~~--~----~~~~~~~~~~-----~~~~~~~s~~~~~~i~~-----------~~~~l~~~i~~~  198 (202)
                      ....  .    .+...+....     ..+++++||..|.|+.+           .+..+++.+..|
T Consensus       157 ~~~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~~s~~~~wy~~~~L~~~Ld~i~~P  222 (224)
T d1jnya3         157 PYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSENMKWYNGPTLEEYLDQLELP  222 (224)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCSSCTTCCSCCHHHHHTTCCCC
T ss_pred             cccHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCcccccccCCCcccccHHHHHhcCCCc
Confidence            2111  1    1122222322     35689999999999854           355556666544

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=99.69  E-value=5.7e-17  Score=113.86  Aligned_cols=165  Identities=15%  Similarity=0.074  Sum_probs=86.7

Q ss_pred             CCCCCCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChh-------hh--
Q 028884           26 SSDAKNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQE-------RY--   96 (202)
Q Consensus        26 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-------~~--   96 (202)
                      +..+.+..++|+++|.+|+|||||+|+|.+.+.........+............+. ..+...+.++..       ..  
T Consensus         9 ~~~p~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~   87 (188)
T d1puia_           9 RHLPSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGK-RLVDLPGYGYAEVPEEMKRKWQR   87 (188)
T ss_dssp             GGSSCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEETTE-EEEECCCCC------CCHHHHHH
T ss_pred             hHCCCccCCEEEEECCCCCCHHHHHHHHhCCCceEeecccccceeeccceeccccc-ceeeeecccccchhhhhhhhhhh
Confidence            34445678999999999999999999999876543333222222222222222222 222222222211       11  


Q ss_pred             -hhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCCh--HHHHHHHHHc--CC
Q 028884           97 -AALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPA--QDGIEYAEKN--GM  171 (202)
Q Consensus        97 -~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~--~~  171 (202)
                       ...........+.++.+.+....... ....++..+...   ..++++++||.|+........  +...+.....  ..
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~---~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~~~~~~~  163 (188)
T d1puia_          88 ALGEYLEKRQSLQGLVVLMDIRHPLKD-LDQQMIEWAVDS---NIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDV  163 (188)
T ss_dssp             HHHHHHHHCTTEEEEEEEEETTSCCCH-HHHHHHHHHHHT---TCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCE
T ss_pred             hhhhhhhhhhheeEEEEeecccccchh-HHHHHHHHhhhc---cccccchhhhhhccCHHHHHHHHHHHHHHHHhhCCCC
Confidence             11112223344566666776655322 223344444433   567999999999865422211  1112222122  34


Q ss_pred             eEEEeccCCCCCHHHHHHHHHHHc
Q 028884          172 FFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       172 ~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      +++.+||++|.|++++++.|.+.+
T Consensus       164 ~~i~vSA~~g~Gid~L~~~i~~~~  187 (188)
T d1puia_         164 QVETFSSLKKQGVDKLRQKLDTWF  187 (188)
T ss_dssp             EEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             cEEEEeCCCCCCHHHHHHHHHHHh
Confidence            689999999999999999987653

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.69  E-value=9.8e-17  Score=117.44  Aligned_cols=155  Identities=15%  Similarity=0.134  Sum_probs=85.9

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCC--CC-----------------------------CCCccccceeEEEEEEEec
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQ--FD-----------------------------PTSKVTVGASFLSQTIALQ   78 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~--~~-----------------------------~~~~~~~~~~~~~~~~~~~   78 (202)
                      .++.++|+++|+.++|||||+.+|+...  ..                             .......+.......+.+.
T Consensus        21 ~k~~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~  100 (245)
T d1r5ba3          21 GKEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETE  100 (245)
T ss_dssp             CCEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECS
T ss_pred             CCCceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCccccccccccccc
Confidence            4567899999999999999999995411  00                             0000011111111112221


Q ss_pred             CCcEEEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHH------HHHHHHHHHHHcCCCCCe-EEEEEeCCCC
Q 028884           79 DSTTVKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFN------KAQYWVKELQKHGSPDIV-MALVGNKADL  151 (202)
Q Consensus        79 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~------~~~~~~~~i~~~~~~~~p-~ivv~nK~D~  151 (202)
                         ...+.++|+||+..|..........+|++++|+|+..+.-..      +..+.+..+...   ++| +++++||+|+
T Consensus       101 ---~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~---~i~~iiv~iNKmD~  174 (245)
T d1r5ba3         101 ---HRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQ---GINHLVVVINKMDE  174 (245)
T ss_dssp             ---SEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHT---TCSSEEEEEECTTS
T ss_pred             ---cceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHc---CCCeEEEEEEcCCC
Confidence               257999999999999988888899999999999999863111      233444444433   343 7899999998


Q ss_pred             CCCCCC--ChHH----HHHHHHHc-------CCeEEEeccCCCCCHHHHHHH
Q 028884          152 HEKREV--PAQD----GIEYAEKN-------GMFFIETSAKTADNINQLFEE  190 (202)
Q Consensus       152 ~~~~~~--~~~~----~~~~~~~~-------~~~~~~~s~~~~~~i~~~~~~  190 (202)
                      ......  ...+    ...+....       .++++++||++|+|+.++++.
T Consensus       175 ~~~~~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~s  226 (245)
T d1r5ba3         175 PSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVDS  226 (245)
T ss_dssp             TTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCCT
T ss_pred             CccchhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchhc
Confidence            643211  1111    12221221       357999999999999775443

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=99.69  E-value=7.1e-16  Score=113.71  Aligned_cols=112  Identities=13%  Similarity=0.145  Sum_probs=80.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC--CCCC----------------CccccceeEEEEEEEecCCcEEEEEEEeCCChhh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ--FDPT----------------SKVTVGASFLSQTIALQDSTTVKFEIWDTAGQER   95 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~--~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   95 (202)
                      -+|+|+|+.++|||||+++|+...  ....                .....+.......+.+.+   ..+.++||||+..
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~---~~~n~iDtPGh~d   79 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRG---HRVFLLDAPGYGD   79 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETT---EEEEEEECCCSGG
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccccc---cceeEEccCchhh
Confidence            369999999999999999996421  1000                011223333334444433   5799999999999


Q ss_pred             hhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 028884           96 YAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH  152 (202)
Q Consensus        96 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~  152 (202)
                      |.......++.+|++|+|+|+.++-.......| ......   ++|.++++||+|..
T Consensus        80 F~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~-~~~~~~---~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          80 FVGEIRGALEAADAALVAVSAEAGVQVGTERAW-TVAERL---GLPRMVVVTKLDKG  132 (267)
T ss_dssp             GHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHH-HHHHHT---TCCEEEEEECGGGC
T ss_pred             hhhhhhhhhcccCceEEEeeccCCccchhHHHH-Hhhhhc---cccccccccccccc
Confidence            999888899999999999999987544444444 334433   68899999999964

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.60  E-value=1.5e-14  Score=112.85  Aligned_cols=159  Identities=13%  Similarity=0.136  Sum_probs=92.7

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCc-cc--cceeEEEEEEEecCCcEEEEEEEeCCChhhhh-----hccccc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSK-VT--VGASFLSQTIALQDSTTVKFEIWDTAGQERYA-----ALAPLY  103 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~-~~--~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-----~~~~~~  103 (202)
                      ..++|+|+|.+|+|||||+|+|.+........ ++  ..+......+...++.  .+.+|||||.....     .+....
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~~~~--~~~l~DtPG~~~~~~~~~~~~~~~~  132 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIP--NVVFWDLPGIGSTNFPPDTYLEKMK  132 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSSCT--TEEEEECCCGGGSSCCHHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeeccCCC--eEEEEeCCCcccccccHHHHHHHhh
Confidence            36999999999999999999999854322211 11  1111111223333333  57899999964322     122233


Q ss_pred             ccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC-------CCCCChHHHH----HHH----HH
Q 028884          104 YRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE-------KREVPAQDGI----EYA----EK  168 (202)
Q Consensus       104 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~-------~~~~~~~~~~----~~~----~~  168 (202)
                      +..+|++|++.|..-..   ...+++..+...   ++|+++|.||+|...       ......+...    ..+    ..
T Consensus       133 ~~~~d~~l~~~~~~~~~---~d~~l~~~l~~~---~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~~~~l~~  206 (400)
T d1tq4a_         133 FYEYDFFIIISATRFKK---NDIDIAKAISMM---KKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRE  206 (400)
T ss_dssp             GGGCSEEEEEESSCCCH---HHHHHHHHHHHT---TCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHH
T ss_pred             hhcceEEEEecCCCCCH---HHHHHHHHHHHc---CCCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHHHHHHHH
Confidence            55688888888754332   222344445543   689999999999531       1111222211    111    11


Q ss_pred             c---CCeEEEeccCC--CCCHHHHHHHHHHHcCCC
Q 028884          169 N---GMFFIETSAKT--ADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       169 ~---~~~~~~~s~~~--~~~i~~~~~~l~~~i~~~  198 (202)
                      .   ..+++.+|..+  ..++.++.+.+.+.+.+.
T Consensus       207 ~~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~~  241 (400)
T d1tq4a_         207 NGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPIY  241 (400)
T ss_dssp             TTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCGG
T ss_pred             cCCCCCCEEEecCCcccccCHHHHHHHHHHHhHHH
Confidence            2   23477888654  458999999998887653

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=99.59  E-value=1.1e-14  Score=107.21  Aligned_cols=125  Identities=15%  Similarity=0.112  Sum_probs=74.0

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccce-eEEEEEEEecCCcEEEEEEEeCCChhh-------hhhccc-
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGA-SFLSQTIALQDSTTVKFEIWDTAGQER-------YAALAP-  101 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~-  101 (202)
                      ...++|+++|.+|+|||||+|.+++...........++ ..........+   ..+.++||||...       ...... 
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g---~~i~viDTPGl~~~~~~~~~~~~~i~~  106 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG---FTLNIIDTPGLIEGGYINDMALNIIKS  106 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT---EEEEEEECCCSEETTEECHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEecc---EEEEEEeeecccCCcchHHHHHHHHHH
Confidence            45799999999999999999999997755444322222 22222233322   5799999999432       111111 


Q ss_pred             -ccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCC--CCCeEEEEEeCCCCCCCCCCC
Q 028884          102 -LYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGS--PDIVMALVGNKADLHEKREVP  158 (202)
Q Consensus       102 -~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~D~~~~~~~~  158 (202)
                       ......|+++||++.+...--......+..+.....  .-.+++||+||+|........
T Consensus       107 ~~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~~~~  166 (257)
T d1h65a_         107 FLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLP  166 (257)
T ss_dssp             HTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCC
T ss_pred             HHhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCcCCCc
Confidence             122346888999887753101111222233332211  124689999999987654443

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.53  E-value=1e-14  Score=110.90  Aligned_cols=116  Identities=16%  Similarity=0.153  Sum_probs=79.1

Q ss_pred             ee-eEEEEcCCCCcHHHHHHHHHhC--CC--------------CCCCccccceeEEEEEEEec-------------CCcE
Q 028884           33 RV-KLVLLGDSGVGKSCIVLRFVRG--QF--------------DPTSKVTVGASFLSQTIALQ-------------DSTT   82 (202)
Q Consensus        33 ~~-~i~v~G~~~~GKSsli~~l~~~--~~--------------~~~~~~~~~~~~~~~~~~~~-------------~~~~   82 (202)
                      .+ +|+|+|+.++|||||+++|+..  ..              ........+.......+.+.             +...
T Consensus        16 ~IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~~   95 (341)
T d1n0ua2          16 NVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNS   95 (341)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSE
T ss_pred             cCcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhccccccc
Confidence            45 6999999999999999999731  10              00011111222222222221             2345


Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLH  152 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~  152 (202)
                      +.+.++||||+..|.......++.+|++|+|+|+..+-..+...-|.. ...   .++|+++++||+|..
T Consensus        96 ~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~-a~~---~~~p~i~viNKiDr~  161 (341)
T d1n0ua2          96 FLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQ-ALG---ERIKPVVVINKVDRA  161 (341)
T ss_dssp             EEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHH-HHH---TTCEEEEEEECHHHH
T ss_pred             eEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHH-HHH---cCCCeEEEEECcccc
Confidence            789999999999999988889999999999999999855554444433 332   368999999999963

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=99.42  E-value=2.5e-14  Score=104.29  Aligned_cols=110  Identities=15%  Similarity=0.115  Sum_probs=64.8

Q ss_pred             EEEEEEeCCChhhhhhccccc-----ccCccEEEEEEeCCC---hhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC
Q 028884           83 VKFEIWDTAGQERYAALAPLY-----YRGAAVAVVVYDITS---PDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEK  154 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~-----~~~~d~~i~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~  154 (202)
                      ..+.++|+||+..+.......     ....+.+++++|+..   +..+............  ....|.++|+||+|+...
T Consensus        95 ~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~--~~~~~~ivvinK~D~~~~  172 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDL--RLGATTIPALNKVDLLSE  172 (244)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHH--HHTSCEEEEECCGGGCCH
T ss_pred             cceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHH--HhCCCceeeeeccccccH
Confidence            458999999987653322211     123568899999764   3222221111111111  236789999999998753


Q ss_pred             CCCChHH-----------------------HHH---HHH--HcCCeEEEeccCCCCCHHHHHHHHHHH
Q 028884          155 REVPAQD-----------------------GIE---YAE--KNGMFFIETSAKTADNINQLFEEIAKR  194 (202)
Q Consensus       155 ~~~~~~~-----------------------~~~---~~~--~~~~~~~~~s~~~~~~i~~~~~~l~~~  194 (202)
                      .......                       ...   ...  ...++++++||++|+|++++++.|.++
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            2110000                       000   001  134679999999999999999998875

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=99.33  E-value=2.1e-12  Score=97.63  Aligned_cols=102  Identities=13%  Similarity=0.086  Sum_probs=62.8

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHH
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDG  162 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  162 (202)
                      +.+.|++|.|...-...   ....+|.+++|.....++..+.+..-   +..     .+=++|+||+|+...........
T Consensus       144 ~d~iiiETVG~gq~e~~---~~~~~D~~v~v~~p~~GD~iQ~~k~g---ilE-----~aDi~vvNKaD~~~~~~~~~~~~  212 (323)
T d2qm8a1         144 FDVILVETVGVGQSETA---VADLTDFFLVLMLPGAGDELQGIKKG---IFE-----LADMIAVNKADDGDGERRASAAA  212 (323)
T ss_dssp             CCEEEEEECSSSSCHHH---HHTTSSEEEEEECSCC------CCTT---HHH-----HCSEEEEECCSTTCCHHHHHHHH
T ss_pred             CCeEEEeehhhhhhhhh---hhcccceEEEEeeccchhhhhhhhhh---Hhh-----hhheeeEeccccccchHHHHHHH
Confidence            57888999886432222   33448999999999987654433221   221     22488899999765433222222


Q ss_pred             HHHHHH----------cCCeEEEeccCCCCCHHHHHHHHHHHc
Q 028884          163 IEYAEK----------NGMFFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       163 ~~~~~~----------~~~~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      ..+...          +..+++.+|++++.|+++++++|.++.
T Consensus       213 ~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~  255 (323)
T d2qm8a1         213 SEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHR  255 (323)
T ss_dssp             HHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHH
Confidence            222221          345799999999999999999997764

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=99.32  E-value=9.6e-13  Score=99.60  Aligned_cols=102  Identities=14%  Similarity=0.019  Sum_probs=58.6

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCCh--H
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPA--Q  160 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~--~  160 (202)
                      +.+.+++|.|.....   ......+|.+++|.++..++..+.+..-+   ...     +=++|+||+|+........  .
T Consensus       147 ~d~iliEtvG~gq~e---~~i~~~aD~~l~v~~P~~Gd~iq~~k~gi---~e~-----aDi~VvNKaD~~~~~~~~~~~~  215 (327)
T d2p67a1         147 YDVVIVETVGVGQSE---TEVARMVDCFISLQIAGGGDDLQGIKKGL---MEV-----ADLIVINKDDGDNHTNVAIARH  215 (327)
T ss_dssp             CSEEEEEEECCTTHH---HHHHTTCSEEEEEECC------CCCCHHH---HHH-----CSEEEECCCCTTCHHHHHHHHH
T ss_pred             CCeEEEeeccccccc---hhhhhccceEEEEecCCCchhhhhhchhh---hcc-----ccEEEEEeecccchHHHHHHHH
Confidence            356777777743221   12455689999999887765544443332   222     2378889999765322111  1


Q ss_pred             HHHHHHH-------HcCCeEEEeccCCCCCHHHHHHHHHHHc
Q 028884          161 DGIEYAE-------KNGMFFIETSAKTADNINQLFEEIAKRL  195 (202)
Q Consensus       161 ~~~~~~~-------~~~~~~~~~s~~~~~~i~~~~~~l~~~i  195 (202)
                      +......       .+..+++.+||.+|.|++++++.|.++.
T Consensus       216 ~~~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~  257 (327)
T d2p67a1         216 MYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFK  257 (327)
T ss_dssp             HHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHH
T ss_pred             HHHHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHH
Confidence            1111111       2345799999999999999999997754

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.20  E-value=1.7e-10  Score=86.37  Aligned_cols=121  Identities=17%  Similarity=0.182  Sum_probs=73.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecC----------C----------------------
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQD----------S----------------------   80 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------~----------------------   80 (202)
                      ..+|+|+|..++|||||||.|++..+.+......+.......+....          +                      
T Consensus        26 ~P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (299)
T d2akab1          26 LPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVTG  105 (299)
T ss_dssp             CCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHCS
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccccCCEEEEEeccccceeEEEeCCCCeeCCHHHHHHHHHHHHHHhhC
Confidence            55899999999999999999999876444332222111111111100          0                      


Q ss_pred             -----------------cEEEEEEEeCCChhh-------------hhhcccccccCcc-EEEEEEeCCChhHHHHHHHHH
Q 028884           81 -----------------TTVKFEIWDTAGQER-------------YAALAPLYYRGAA-VAVVVYDITSPDSFNKAQYWV  129 (202)
Q Consensus        81 -----------------~~~~~~i~D~~G~~~-------------~~~~~~~~~~~~d-~~i~v~d~~~~~s~~~~~~~~  129 (202)
                                       ....+.++|+||...             ...+...|+...+ +++++.++....+-.....+.
T Consensus       106 ~~~~~~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~  185 (299)
T d2akab1         106 TNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIA  185 (299)
T ss_dssp             STTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHH
T ss_pred             CCcCcCCccEEEEEcCCCCCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHH
Confidence                             002378999999421             2344556666666 455667776654444444554


Q ss_pred             HHHHHcCCCCCeEEEEEeCCCCCCCCC
Q 028884          130 KELQKHGSPDIVMALVGNKADLHEKRE  156 (202)
Q Consensus       130 ~~i~~~~~~~~p~ivv~nK~D~~~~~~  156 (202)
                      +.+.   ....++++|+||+|..++..
T Consensus       186 ~~~~---~~~~r~i~Vltk~D~~~~~~  209 (299)
T d2akab1         186 KEVD---PQGQRTIGVITKLDLMDEGT  209 (299)
T ss_dssp             HHHC---TTCSSEEEEEECGGGSCTTC
T ss_pred             HHhC---cCCCceeeEEeccccccchh
Confidence            4443   33467999999999876543

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=99.11  E-value=3.2e-10  Score=83.96  Aligned_cols=85  Identities=15%  Similarity=0.104  Sum_probs=51.8

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCC-----------cE---EEEEEEeCCChhh---
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDS-----------TT---VKFEIWDTAGQER---   95 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~---~~~~i~D~~G~~~---   95 (202)
                      .++|.++|.|+||||||++++++........+..+.+...-.+.+++.           .+   ..+.++|.||.-.   
T Consensus         2 ~~~~GivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga~   81 (278)
T d1jala1           2 GFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGAS   81 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCcc
Confidence            379999999999999999999987654333333332222222222211           11   2588999999421   


Q ss_pred             ----hhhcccccccCccEEEEEEeCC
Q 028884           96 ----YAALAPLYYRGAAVAVVVYDIT  117 (202)
Q Consensus        96 ----~~~~~~~~~~~~d~~i~v~d~~  117 (202)
                          .....-..++.+|+++.|+|..
T Consensus        82 ~g~Glg~~FL~~ir~~d~LihVVr~f  107 (278)
T d1jala1          82 KGEGLGNKFLANIRETDAIGHVVRCF  107 (278)
T ss_dssp             HHGGGTCCHHHHHHTCSEEEEEEECS
T ss_pred             cCCCccHHHHHHHHhccceEEEeecc
Confidence                1122334577899999999863

>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=99.10  E-value=2.5e-10  Score=85.66  Aligned_cols=120  Identities=19%  Similarity=0.215  Sum_probs=69.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEE------------------------------------
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIA------------------------------------   76 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~------------------------------------   76 (202)
                      ..+|+|+|..++|||||||.|++..+.+....+.+.......+.                                    
T Consensus        24 lP~ivVvG~~ssGKSSliNaLlG~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  103 (306)
T d1jwyb_          24 LPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLILQLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIREEII  103 (306)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHTSCCCCC--------CEEEEEEECCCCTTSCCCCCEEEESSSTTCCBCCTHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHhCCCCCCCCCCccccCCEEEEEecCCcccCccchhhhhHHhhcCCceecCHHHHHHHHH
Confidence            45899999999999999999999776444332222111111100                                    


Q ss_pred             ---------------------ecCCcEEEEEEEeCCChhh-------------hhhcccccccCccEEEEEE-eCCChhH
Q 028884           77 ---------------------LQDSTTVKFEIWDTAGQER-------------YAALAPLYYRGAAVAVVVY-DITSPDS  121 (202)
Q Consensus        77 ---------------------~~~~~~~~~~i~D~~G~~~-------------~~~~~~~~~~~~d~~i~v~-d~~~~~s  121 (202)
                                           ........+.++|+||...             ...++..|+..++.+++++ +......
T Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~  183 (306)
T d1jwyb_         104 RDTDRMTGKNKGISAQPINLKIYSPHVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLA  183 (306)
T ss_dssp             HHCC--------CCCCCEEEEEEETTSCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCST
T ss_pred             HHHHHhcCCCCcccccceEEEecCCCCCCceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeeccccccc
Confidence                                 0000012477999999432             2355667788888766655 4443322


Q ss_pred             HHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCC
Q 028884          122 FNKAQYWVKELQKHGSPDIVMALVGNKADLHEKR  155 (202)
Q Consensus       122 ~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~  155 (202)
                      -.....+.+.+.   ....++++|+||+|..+..
T Consensus       184 ~~~~~~~~~~~~---~~~~r~i~Vitk~D~~~~~  214 (306)
T d1jwyb_         184 NSDALQLAKEVD---PEGKRTIGVITKLDLMDKG  214 (306)
T ss_dssp             TCSHHHHHHHHC---SSCSSEEEEEECTTSSCSS
T ss_pred             ccHHHHHHHHhC---cCCCeEEEEEeccccccch
Confidence            223333433332   3345799999999986543

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.09  E-value=9.8e-10  Score=82.01  Aligned_cols=87  Identities=16%  Similarity=0.163  Sum_probs=55.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCCC-CCCccccceeEEEEEEEecCC--------------cEEEEEEEeCCChhh-
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQFD-PTSKVTVGASFLSQTIALQDS--------------TTVKFEIWDTAGQER-   95 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~i~D~~G~~~-   95 (202)
                      ..++|.++|.|+||||||+|.+++.... ....|..+.+...-.+.+++.              ....+.++|.||... 
T Consensus         9 ~~~kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~g   88 (296)
T d1ni3a1           9 NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKG   88 (296)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeeccccccc
Confidence            4589999999999999999999986542 222333332222222333221              124688999998432 


Q ss_pred             ------hhhcccccccCccEEEEEEeCCC
Q 028884           96 ------YAALAPLYYRGAAVAVVVYDITS  118 (202)
Q Consensus        96 ------~~~~~~~~~~~~d~~i~v~d~~~  118 (202)
                            ........++.+|++|.|+|+.+
T Consensus        89 A~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          89 ASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             CCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cccccccHHHHHHHhhccceeEEEEeccC
Confidence                  11223445778999999998754

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=98.93  E-value=1.6e-09  Score=81.70  Aligned_cols=84  Identities=15%  Similarity=0.058  Sum_probs=44.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEE---Ee------------------cCCcEEEEEEEeCCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTI---AL------------------QDSTTVKFEIWDTAG   92 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~---~~------------------~~~~~~~~~i~D~~G   92 (202)
                      ++|.++|.|+||||||+|.|++........|..+.+...-..   ..                  .......+.++|+||
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pG   80 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCCCchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCC
Confidence            479999999999999999999876433333322221100000   00                  001225799999999


Q ss_pred             hhh-------hhhcccccccCccEEEEEEeCC
Q 028884           93 QER-------YAALAPLYYRGAAVAVVVYDIT  117 (202)
Q Consensus        93 ~~~-------~~~~~~~~~~~~d~~i~v~d~~  117 (202)
                      .-.       ........++.+|+++.|+|+.
T Consensus        81 li~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~  112 (319)
T d1wxqa1          81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDAT  112 (319)
T ss_dssp             --------------CCCSSTTCSEEEEEEETT
T ss_pred             cccchhcccchHHHHHHhhccceEEEEEeccc
Confidence            532       2223344567899999999986

>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=98.59  E-value=3.5e-08  Score=72.58  Aligned_cols=59  Identities=24%  Similarity=0.409  Sum_probs=36.7

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCCh
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQ   93 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   93 (202)
                      ....++|+|+|.|+||||||+|+|.+.+.......+ +.+.....+..  +.  .+.++||||.
T Consensus       109 ~~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~~~p-G~Tr~~~~i~~--~~--~~~l~DTPGi  167 (273)
T d1puja_         109 KPRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRP-GITTSQQWVKV--GK--ELELLDTPGI  167 (273)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CCEEE--TT--TEEEEECCCC
T ss_pred             CCCceEEEEEecCccchhhhhhhhhccceEEECCcc-cccccceEEEC--CC--CeEEecCCCc
Confidence            356799999999999999999999997654443322 22121222222  12  4899999994

>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=98.48  E-value=1.7e-07  Score=66.33  Aligned_cols=85  Identities=22%  Similarity=0.224  Sum_probs=61.7

Q ss_pred             cccCccEEEEEEeCCCh-hHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHH--HcCCeEEEeccC
Q 028884          103 YYRGAAVAVVVYDITSP-DSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAE--KNGMFFIETSAK  179 (202)
Q Consensus       103 ~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~--~~~~~~~~~s~~  179 (202)
                      .+.+.|.+++|+++.+| .+...+.+|+-.....   +++.+||+||+|+....+  .+....+..  ....+++.+|++
T Consensus         7 ~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~~---~i~pvIvlnK~DL~~~~~--~~~~~~~~~~~~~~~~v~~vSa~   81 (225)
T d1u0la2           7 HVANVDQVILVVTVKMPETSTYIIDKFLVLAEKN---ELETVMVINKMDLYDEDD--LRKVRELEEIYSGLYPIVKTSAK   81 (225)
T ss_dssp             TEESCCEEEEEECSSTTCCCHHHHHHHHHHHHHT---TCEEEEEECCGGGCCHHH--HHHHHHHHHHHTTTSCEEECCTT
T ss_pred             CcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHc---CCCEEEEEeCcccCCHHH--HHHHHHhhcccccceeEEEeccc
Confidence            46778999999999876 4456677777666654   788999999999875322  122222232  234678999999


Q ss_pred             CCCCHHHHHHHHH
Q 028884          180 TADNINQLFEEIA  192 (202)
Q Consensus       180 ~~~~i~~~~~~l~  192 (202)
                      ++.+++++.+.+.
T Consensus        82 ~~~g~~~L~~~l~   94 (225)
T d1u0la2          82 TGMGIEELKEYLK   94 (225)
T ss_dssp             TCTTHHHHHHHHS
T ss_pred             cchhHhhHHHHhc
Confidence            9999999887763

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.44  E-value=1.2e-06  Score=59.49  Aligned_cols=22  Identities=36%  Similarity=0.822  Sum_probs=20.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +||+++|++|+|||||++.+.+
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~   22 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHh
Confidence            5899999999999999999987

>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=98.41  E-value=7.9e-08  Score=68.07  Aligned_cols=59  Identities=22%  Similarity=0.126  Sum_probs=35.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCCCCCCCc------cccceeEEEEEEEecCCcEEEEEEEeCCChhhh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQFDPTSK------VTVGASFLSQTIALQDSTTVKFEIWDTAGQERY   96 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   96 (202)
                      -..+++|.+|+|||||||+|.+........      ....+......+.+.++    -.++||||...+
T Consensus        96 kt~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~g----g~iiDTPG~r~~  160 (225)
T d1u0la2          96 KISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFG----GYVVDTPGFANL  160 (225)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTS----CEEESSCSSTTC
T ss_pred             CeEEEECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCC----cEEEeCCccccc
Confidence            367899999999999999998754322211      11122222333444433    368899997543

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=98.28  E-value=1e-05  Score=56.68  Aligned_cols=89  Identities=16%  Similarity=0.146  Sum_probs=51.0

Q ss_pred             EEEEEEeCCChhhh--------hhcc---ccccc-CccEEEEEEeCCCh-hHHHHHHHHHHHHHHcCCCCCeEEEEEeCC
Q 028884           83 VKFEIWDTAGQERY--------AALA---PLYYR-GAAVAVVVYDITSP-DSFNKAQYWVKELQKHGSPDIVMALVGNKA  149 (202)
Q Consensus        83 ~~~~i~D~~G~~~~--------~~~~---~~~~~-~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~  149 (202)
                      ..+.++||+|...+        ..+.   ..... ..+-.++|+|++.. ..+.++..++..+    .   +--+++||.
T Consensus        94 ~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~----~---~~~lI~TKl  166 (213)
T d1vmaa2          94 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQNGLVQAKIFKEAV----N---VTGIILTKL  166 (213)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHHHHHHHHHHHHHS----C---CCEEEEECG
T ss_pred             CCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCcchhhhhhhhcccc----C---CceEEEecc
Confidence            46899999993221        1111   11111 24678899999865 3334433333322    1   235678999


Q ss_pred             CCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCH
Q 028884          150 DLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       150 D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i  184 (202)
                      |..    ...-.+.......+.|+..++  +|+++
T Consensus       167 De~----~~~G~~l~~~~~~~~Pi~~i~--~Gq~v  195 (213)
T d1vmaa2         167 DGT----AKGGITLAIARELGIPIKFIG--VGEKA  195 (213)
T ss_dssp             GGC----SCTTHHHHHHHHHCCCEEEEE--CSSSG
T ss_pred             cCC----CcccHHHHHHHHHCCCEEEEe--CCCCc
Confidence            943    233456777778888877776  34444

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=98.19  E-value=6.7e-06  Score=57.37  Aligned_cols=84  Identities=13%  Similarity=0.021  Sum_probs=50.2

Q ss_pred             EEEEEEeCCChhhhhh----ccccc--------ccCccEEEEEEeCCCh-hHHHHHHHHHHHHHHcCCCCCeEEEEEeCC
Q 028884           83 VKFEIWDTAGQERYAA----LAPLY--------YRGAAVAVVVYDITSP-DSFNKAQYWVKELQKHGSPDIVMALVGNKA  149 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~----~~~~~--------~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~  149 (202)
                      ..+.++||+|...+..    ....+        ....+-+++|+|++.. +....+..++..+.    .   --+++||.
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~~----~---~~lI~TKl  161 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAVG----L---TGVIVTKL  161 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHHC----C---SEEEEECT
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhccC----C---ceEEEecc
Confidence            4689999999432211    11111        1234678889998865 44555555555442    1   25678999


Q ss_pred             CCCCCCCCChHHHHHHHHHcCCeEEEec
Q 028884          150 DLHEKREVPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       150 D~~~~~~~~~~~~~~~~~~~~~~~~~~s  177 (202)
                      |....    .-.+.......+.|+..++
T Consensus       162 Det~~----~G~~l~~~~~~~~Pi~~i~  185 (207)
T d1okkd2         162 DGTAK----GGVLIPIVRTLKVPIKFVG  185 (207)
T ss_dssp             TSSCC----CTTHHHHHHHHCCCEEEEE
T ss_pred             CCCCC----ccHHHHHHHHHCCCEEEEe
Confidence            95332    3345666777888876666

>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=98.17  E-value=3e-07  Score=65.23  Aligned_cols=87  Identities=21%  Similarity=0.165  Sum_probs=62.7

Q ss_pred             ccccCccEEEEEEeCCCh-hHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCC--hHHHHHHHHHcCCeEEEecc
Q 028884          102 LYYRGAAVAVVVYDITSP-DSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVP--AQDGIEYAEKNGMFFIETSA  178 (202)
Q Consensus       102 ~~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~s~  178 (202)
                      -.+.+.|.+++|+++.+| .++..+.+++-....   .+++.+||+||+|+....+..  ...........+.+++.+|+
T Consensus         6 P~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~---~~i~pvIvlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~~~Sa   82 (231)
T d1t9ha2           6 PPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYLTSS   82 (231)
T ss_dssp             TTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEEECCH
T ss_pred             CCccccCEEEEEEECCCCCCCHHHHHHHHHHHHH---cCCCEEEEEecccccccHHHHHHHHHHHHHHhhccccceeeec
Confidence            345688999999998876 456677777666554   378899999999987643211  12233345567899999999


Q ss_pred             CCCCCHHHHHHHH
Q 028884          179 KTADNINQLFEEI  191 (202)
Q Consensus       179 ~~~~~i~~~~~~l  191 (202)
                      +++.|++++.++|
T Consensus        83 ~~~~gl~~L~~~l   95 (231)
T d1t9ha2          83 KDQDSLADIIPHF   95 (231)
T ss_dssp             HHHTTCTTTGGGG
T ss_pred             CChhHHHHHHHhh
Confidence            9999988876654

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=98.14  E-value=2.8e-05  Score=54.25  Aligned_cols=88  Identities=14%  Similarity=0.176  Sum_probs=51.7

Q ss_pred             EEEEEEeCCChhhh--------hhccccccc-----CccEEEEEEeCCCh-hHHHHHHHHHHHHHHcCCCCCeEEEEEeC
Q 028884           83 VKFEIWDTAGQERY--------AALAPLYYR-----GAAVAVVVYDITSP-DSFNKAQYWVKELQKHGSPDIVMALVGNK  148 (202)
Q Consensus        83 ~~~~i~D~~G~~~~--------~~~~~~~~~-----~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK  148 (202)
                      ..+.++||+|....        ..+.. .++     ..+-.++|.|++.. +.......+++.+    .   +--+++||
T Consensus        92 ~d~ilIDTaGr~~~d~~~~~el~~l~~-~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~----~---~~~lIlTK  163 (211)
T d2qy9a2          92 IDVLIADTAGRLQNKSHLMEELKKIVR-VMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAV----G---LTGITLTK  163 (211)
T ss_dssp             CSEEEECCCCCGGGHHHHHHHHHHHHH-HHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHHS----C---CCEEEEEC
T ss_pred             CCEEEeccCCCccccHHHHHHHHHHHH-HHhhhcccCcceeeeehhcccCcchHHHHhhhhhcc----C---CceEEEee
Confidence            46899999994221        11111 111     24678899998865 3344444443332    1   23567899


Q ss_pred             CCCCCCCCCChHHHHHHHHHcCCeEEEeccCCCCCH
Q 028884          149 ADLHEKREVPAQDGIEYAEKNGMFFIETSAKTADNI  184 (202)
Q Consensus       149 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i  184 (202)
                      .|...    ..-.+.......++|+..++  .|+++
T Consensus       164 lDe~~----~~G~~l~~~~~~~~Pi~~i~--~Gq~v  193 (211)
T d2qy9a2         164 LDGTA----KGGVIFSVADQFGIPIRYIG--VGERI  193 (211)
T ss_dssp             CTTCT----TTTHHHHHHHHHCCCEEEEE--CSSSG
T ss_pred             cCCCC----CccHHHHHHHHHCCCEEEEe--CCCCc
Confidence            99433    24456677778888877776  44444

>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=98.14  E-value=5.9e-07  Score=65.83  Aligned_cols=88  Identities=16%  Similarity=0.130  Sum_probs=60.7

Q ss_pred             ccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEEeccC
Q 028884          100 APLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIETSAK  179 (202)
Q Consensus       100 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~  179 (202)
                      ....++.+|++|+|+|+.+|.+...  .+++.+.    .++|.++|+||+|+.+..  ..+...++....+...+.+|+.
T Consensus         9 i~~~i~~~DvIl~V~DaR~P~ss~~--~~l~~~~----~~Kp~IlVlNK~DLv~~~--~~~~w~~~f~~~~~~~i~isa~   80 (273)
T d1puja_           9 VTEKLKLIDIVYELVDARIPMSSRN--PMIEDIL----KNKPRIMLLNKADKADAA--VTQQWKEHFENQGIRSLSINSV   80 (273)
T ss_dssp             HHHHGGGCSEEEEEEETTSTTTTSC--HHHHHHC----SSSCEEEEEECGGGSCHH--HHHHHHHHHHTTTCCEEECCTT
T ss_pred             HHHHHHhCCEEEEEEECCCCCCCCC--HHHHHHH----cCCCeEEEEECccCCchH--HHHHHHHHHHhcCCccceeecc
Confidence            3446788999999999998854321  1222222    267899999999987542  2233444455567789999999


Q ss_pred             CCCCHHHHHHHHHHHc
Q 028884          180 TADNINQLFEEIAKRL  195 (202)
Q Consensus       180 ~~~~i~~~~~~l~~~i  195 (202)
                      ++.+...+.+.+.+.+
T Consensus        81 ~~~~~~~~~~~~~~~l   96 (273)
T d1puja_          81 NGQGLNQIVPASKEIL   96 (273)
T ss_dssp             TCTTGGGHHHHHHHHH
T ss_pred             cCCCccccchhhhhhh
Confidence            9999887776665543

>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=98.06  E-value=3.9e-07  Score=64.63  Aligned_cols=24  Identities=33%  Similarity=0.429  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      -..+++|++|+|||||||+|.+..
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             ceEEEECCCCccHHHHHHhhccHh
Confidence            356799999999999999999853

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.06  E-value=2.3e-05  Score=55.34  Aligned_cols=23  Identities=22%  Similarity=0.355  Sum_probs=20.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .=++|.|--|+|||||+++++..
T Consensus         4 Pv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           4 AVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CEEEEeeCCCCCHHHHHHHHHhc
Confidence            34678999999999999999975

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=98.05  E-value=8.1e-06  Score=56.99  Aligned_cols=84  Identities=15%  Similarity=0.126  Sum_probs=50.2

Q ss_pred             EEEEEEeCCChhhhh----hccccc--ccCccEEEEEEeCCChh-HHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCC
Q 028884           83 VKFEIWDTAGQERYA----ALAPLY--YRGAAVAVVVYDITSPD-SFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKR  155 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~----~~~~~~--~~~~d~~i~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~  155 (202)
                      .++.++||+|.....    ..+..+  .-..+-+++|.|++.+. .......+++.+    ..   --+++||.|..   
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~~----~~---~~~I~TKlDe~---  162 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKV----GV---TGLVLTKLDGD---  162 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHT----CC---CEEEEECGGGC---
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhhC----CC---CeeEEeecCcc---
Confidence            468999999943221    111111  22467889999988763 334444443333    11   24678999942   


Q ss_pred             CCChHHHHHHHHHcCCeEEEec
Q 028884          156 EVPAQDGIEYAEKNGMFFIETS  177 (202)
Q Consensus       156 ~~~~~~~~~~~~~~~~~~~~~s  177 (202)
                       ...-.+...+...+.|+..++
T Consensus       163 -~~~G~~l~~~~~~~~Pi~~i~  183 (207)
T d1ls1a2         163 -ARGGAALSARHVTGKPIYFAG  183 (207)
T ss_dssp             -SSCHHHHHHHHHHCCCEEEEC
T ss_pred             -ccchHHHHHHHHHCCCEEEEe
Confidence             234566777788888877665

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=98.02  E-value=5.1e-06  Score=58.15  Aligned_cols=90  Identities=17%  Similarity=0.169  Sum_probs=52.7

Q ss_pred             EEEEEEeCCChhhhh------hccccc--ccCccEEEEEEeCCCh-hHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 028884           83 VKFEIWDTAGQERYA------ALAPLY--YRGAAVAVVVYDITSP-DSFNKAQYWVKELQKHGSPDIVMALVGNKADLHE  153 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~------~~~~~~--~~~~d~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~  153 (202)
                      ..+.++||+|...+.      .....+  .-..+-+++|+|++.. +.......++..+      +. --+++||.|.. 
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~~~~------~~-~~lI~TKlDet-  166 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQAS------KI-GTIIITKMDGT-  166 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHHC------TT-EEEEEECTTSC-
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhhccc------Cc-ceEEEecccCC-
Confidence            479999999953221      111111  1125678889998865 3333333332221      22 24668999943 


Q ss_pred             CCCCChHHHHHHHHHcCCeEEEeccCCCCCHH
Q 028884          154 KREVPAQDGIEYAEKNGMFFIETSAKTADNIN  185 (202)
Q Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~  185 (202)
                         ...-.+.......++|+..++  +|++++
T Consensus       167 ---~~~G~~l~~~~~~~lPi~~it--~Gq~v~  193 (211)
T d1j8yf2         167 ---AKGGGALSAVAATGATIKFIG--TGEKID  193 (211)
T ss_dssp             ---SCHHHHHHHHHTTTCCEEEEE--CSSSTT
T ss_pred             ---CcccHHHHHHHHHCcCEEEEe--CCCCcc
Confidence               345667778888899977776  355554

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.00  E-value=3.1e-05  Score=52.29  Aligned_cols=22  Identities=27%  Similarity=0.498  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +|++.|++|+|||||+..+...
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~~   24 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            5899999999999999988753

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.71  E-value=1.1e-05  Score=54.24  Aligned_cols=26  Identities=15%  Similarity=0.400  Sum_probs=23.2

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .++.++|+|.|++||||||+.+.|..
T Consensus         2 ~pk~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           2 QPKGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            35679999999999999999998875

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.65  E-value=1.2e-05  Score=54.49  Aligned_cols=23  Identities=26%  Similarity=0.468  Sum_probs=21.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-+|+|.|++|+|||||+++|..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999986

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.55  E-value=2.2e-05  Score=52.45  Aligned_cols=21  Identities=24%  Similarity=0.431  Sum_probs=19.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -|+|+|.+|||||||+++|..
T Consensus         4 vi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999999986

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.54  E-value=2.2e-05  Score=52.58  Aligned_cols=23  Identities=26%  Similarity=0.459  Sum_probs=20.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..+|+|.|++||||||+.+.|..
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999998865

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.53  E-value=2.6e-05  Score=53.45  Aligned_cols=24  Identities=33%  Similarity=0.547  Sum_probs=21.5

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +.++|+++|+|||||||+...|..
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999998875

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.46  E-value=3.5e-05  Score=50.58  Aligned_cols=20  Identities=30%  Similarity=0.551  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 028884           36 LVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~   55 (202)
                      |++.|+||||||||+++|..
T Consensus         5 Iii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            77899999999999999875

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.44  E-value=3.9e-05  Score=51.97  Aligned_cols=22  Identities=36%  Similarity=0.575  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ++|+|+|+|||||||+.+.|..
T Consensus         1 m~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           1 MNLVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999988765

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.42  E-value=5.1e-05  Score=52.05  Aligned_cols=25  Identities=20%  Similarity=0.464  Sum_probs=22.5

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+.++|+|+|+|||||||+...|..
T Consensus         4 ~r~mrIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           4 ARLLRAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             SCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcceeEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999999999876

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.41  E-value=0.0002  Score=52.02  Aligned_cols=100  Identities=12%  Similarity=0.063  Sum_probs=53.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCC--CCCC-ccccceeEEEEEEEecCCcEEEEEEEeCCChhhhhh--------cc
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQF--DPTS-KVTVGASFLSQTIALQDSTTVKFEIWDTAGQERYAA--------LA  100 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~--~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~  100 (202)
                      +..=|.|+|+.++|||+|+|.|++...  .... ....+..+-........+....+.++||.|......        +.
T Consensus        31 ~v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~~~~~~~~~~~lDteG~~~~~~~~~~~~~~i~  110 (277)
T d1f5na2          31 PMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGDVEKGDNQNDSWIF  110 (277)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCCGGGCCCTTHHHHH
T ss_pred             CEEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeeccCCCCceEEEEecccccccccccchhHHHHH
Confidence            445666999999999999999998653  1111 011111121222233344446899999999543221        11


Q ss_pred             cccccCccEEEEE-EeCCChhHHHHHHHHHHH
Q 028884          101 PLYYRGAAVAVVV-YDITSPDSFNKAQYWVKE  131 (202)
Q Consensus       101 ~~~~~~~d~~i~v-~d~~~~~s~~~~~~~~~~  131 (202)
                      ...+--++++||= ....+...++.+....+.
T Consensus       111 ~l~~llSs~~i~N~~~~~~~~~l~~L~~~~~~  142 (277)
T d1f5na2         111 ALAVLLSSTFVYNSIGTINQQAMDQLYYVTEL  142 (277)
T ss_dssp             HHHHHHCSEEEEEEESCSSHHHHHTTHHHHTH
T ss_pred             HHHHHHhCEEEEeccccCcHHHHHHHHHHHHH
Confidence            1111225666664 444445445544444333

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.39  E-value=5.1e-05  Score=51.49  Aligned_cols=23  Identities=26%  Similarity=0.619  Sum_probs=20.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ++|+|+|+|||||||+.+.|...
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999998753

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.37  E-value=4.7e-05  Score=52.06  Aligned_cols=23  Identities=17%  Similarity=0.238  Sum_probs=20.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +++|+|.|++||||||+.+.|..
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            57899999999999999988764

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.36  E-value=6.9e-05  Score=51.36  Aligned_cols=24  Identities=29%  Similarity=0.411  Sum_probs=20.8

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ....|+|+|+|||||||+.++|..
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346789999999999999998875

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.35  E-value=6e-05  Score=51.20  Aligned_cols=23  Identities=35%  Similarity=0.543  Sum_probs=20.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ++|+|+|+|||||||+.+.|...
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999888763

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.32  E-value=6.1e-05  Score=50.98  Aligned_cols=22  Identities=23%  Similarity=0.422  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ++|+|+|+|||||||+.+.|..
T Consensus         1 m~I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999988864

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.31  E-value=6.7e-05  Score=50.91  Aligned_cols=23  Identities=26%  Similarity=0.557  Sum_probs=20.9

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .++|+|+|+|||||||+.+.|..
T Consensus         2 ~mrIvl~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           2 SIRMVLIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999998865

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.31  E-value=6.5e-05  Score=50.08  Aligned_cols=20  Identities=35%  Similarity=0.610  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 028884           36 LVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~   55 (202)
                      |++.|++||||||+++.|..
T Consensus         5 I~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999975

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.26  E-value=8.3e-05  Score=49.64  Aligned_cols=21  Identities=19%  Similarity=0.441  Sum_probs=18.6

Q ss_pred             eE-EEEcCCCCcHHHHHHHHHh
Q 028884           35 KL-VLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i-~v~G~~~~GKSsli~~l~~   55 (202)
                      || .|+|.+|||||||+++|..
T Consensus         2 kii~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHH
Confidence            44 5999999999999999976

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.16  E-value=0.00011  Score=48.48  Aligned_cols=21  Identities=33%  Similarity=0.569  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +|+++|++||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKSTvak~La~   24 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998876

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.15  E-value=0.00017  Score=48.28  Aligned_cols=25  Identities=20%  Similarity=0.217  Sum_probs=21.4

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+..-|.+.|.+||||||+.+.|..
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999987764

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.14  E-value=0.00012  Score=50.47  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=19.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .=|+++|.|||||||+.++|..
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3488999999999999999875

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.14  E-value=0.00015  Score=49.53  Aligned_cols=23  Identities=30%  Similarity=0.534  Sum_probs=20.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ++.|+|+|+|||||||+...|..
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999988865

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.08  E-value=0.00025  Score=47.71  Aligned_cols=24  Identities=25%  Similarity=0.301  Sum_probs=20.5

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...=|+++|.||||||||++++..
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            345788999999999999999864

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.07  E-value=0.00014  Score=48.57  Aligned_cols=22  Identities=45%  Similarity=0.569  Sum_probs=19.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+|+++|.+||||||+.+.|..
T Consensus         2 p~IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999988764

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.04  E-value=0.00016  Score=48.68  Aligned_cols=20  Identities=25%  Similarity=0.333  Sum_probs=17.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 028884           36 LVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~   55 (202)
                      |+|.|.+||||||+++.|..
T Consensus         4 I~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67889999999999998854

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.02  E-value=0.00019  Score=48.84  Aligned_cols=21  Identities=33%  Similarity=0.619  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      |+|+|++||||+||+++|...
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999999764

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=97.01  E-value=0.00036  Score=51.80  Aligned_cols=23  Identities=17%  Similarity=0.390  Sum_probs=20.8

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .+|+|.|++|||||||++.|+..
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGG
T ss_pred             CCEEEEeeccccchHHHHHHhhh
Confidence            46999999999999999999873

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.99  E-value=0.00019  Score=47.65  Aligned_cols=21  Identities=29%  Similarity=0.548  Sum_probs=18.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +|+++|.+||||||+.+.|..
T Consensus         2 ~I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999988854

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.99  E-value=0.00021  Score=47.50  Aligned_cols=21  Identities=38%  Similarity=0.547  Sum_probs=18.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      =+++.|.+||||||+.+.|..
T Consensus         8 iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           8 IYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            356799999999999999876

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.96  E-value=0.00021  Score=50.77  Aligned_cols=25  Identities=28%  Similarity=0.282  Sum_probs=21.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +.=.|+|+|+.|+|||||++-+.+-
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhc
Confidence            3447999999999999999988873

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.96  E-value=0.00039  Score=47.50  Aligned_cols=23  Identities=26%  Similarity=0.488  Sum_probs=20.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .--|+|+|+|||||||+...|..
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            44588999999999999999876

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.92  E-value=0.00026  Score=47.94  Aligned_cols=21  Identities=43%  Similarity=0.510  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      |+++|++|||||||++.|...
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            679999999999999999764

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.92  E-value=0.00027  Score=47.16  Aligned_cols=21  Identities=38%  Similarity=0.491  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      |++.|++||||||+.+.|...
T Consensus         7 I~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            778999999999999988753

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=96.91  E-value=0.00029  Score=50.46  Aligned_cols=24  Identities=21%  Similarity=0.360  Sum_probs=20.8

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ..-|++.|+||+|||||++.+...
T Consensus        32 P~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          32 PTAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            445999999999999999998764

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.87  E-value=0.00027  Score=48.78  Aligned_cols=22  Identities=18%  Similarity=0.356  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++|+.|+|||||++.+.+-
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCChHHHHHHHHhcc
Confidence            5789999999999999999874

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.86  E-value=0.00032  Score=47.43  Aligned_cols=21  Identities=43%  Similarity=0.670  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      |+|+|++|+||+||+++|...
T Consensus         6 ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           6 LVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            889999999999999999863

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.84  E-value=0.00031  Score=48.05  Aligned_cols=22  Identities=23%  Similarity=0.441  Sum_probs=19.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-|+|+|+|||||||+...|..
T Consensus         9 ~iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_           9 KIIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3488999999999999998876

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=96.84  E-value=0.00031  Score=49.93  Aligned_cols=26  Identities=31%  Similarity=0.278  Sum_probs=21.8

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .+.=.++|+|+.|+|||||++-+.+-
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            34457899999999999999988863

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.83  E-value=0.00029  Score=50.42  Aligned_cols=23  Identities=39%  Similarity=0.525  Sum_probs=20.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .=.++|+|+.|||||||++.+.+
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            34799999999999999998876

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.83  E-value=0.00035  Score=46.48  Aligned_cols=21  Identities=38%  Similarity=0.419  Sum_probs=18.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      |++.|.+||||||+.+.|...
T Consensus         6 I~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            556699999999999998863

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.82  E-value=0.00036  Score=47.66  Aligned_cols=20  Identities=40%  Similarity=0.703  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 028884           36 LVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~   55 (202)
                      |+|+|++||||+||+++|..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999865

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.80  E-value=0.00056  Score=46.37  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=20.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..+=|.|-|++|||||||.+.|..
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            356788999999999999998864

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.79  E-value=0.00038  Score=49.03  Aligned_cols=22  Identities=32%  Similarity=0.430  Sum_probs=19.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -++++|+.|||||||++-+.+-
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            5789999999999999988763

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.78  E-value=0.00036  Score=49.85  Aligned_cols=24  Identities=25%  Similarity=0.281  Sum_probs=20.9

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .=.++|+|+.|||||||++-+.+-
T Consensus        40 Ge~vaivG~sGsGKSTLl~li~gl   63 (251)
T d1jj7a_          40 GEVTALVGPNGSGKSTVAALLQNL   63 (251)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcc
Confidence            347899999999999999988873

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.77  E-value=0.00038  Score=50.58  Aligned_cols=23  Identities=22%  Similarity=0.495  Sum_probs=20.4

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      =.++|+|+.|+|||||++.+.+-
T Consensus        63 e~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          63 EMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHhCC
Confidence            35889999999999999999873

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.76  E-value=0.0004  Score=46.40  Aligned_cols=21  Identities=19%  Similarity=0.487  Sum_probs=18.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .|+++|.+||||||+.+.|..
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            378899999999999988854

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.72  E-value=0.00046  Score=47.79  Aligned_cols=21  Identities=24%  Similarity=0.520  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      |+|+|++||||+||+++|...
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            679999999999999999864

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.72  E-value=0.00047  Score=48.77  Aligned_cols=22  Identities=36%  Similarity=0.415  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -++++|+.|||||||++.+.+-
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            3568999999999999999874

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.71  E-value=0.00041  Score=48.84  Aligned_cols=21  Identities=29%  Similarity=0.362  Sum_probs=18.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+.++|+.|||||||++-+.+
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCcchhhHhccC
Confidence            578999999999999997766

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=96.70  E-value=0.00052  Score=48.39  Aligned_cols=23  Identities=26%  Similarity=0.501  Sum_probs=20.7

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-.+++.|+||+||||+++.+..
T Consensus        35 ~~~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2          35 LEHLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998876

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=96.68  E-value=0.00055  Score=48.21  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=20.0

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .++++.|+||+||||+++.+..
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~   57 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIAS   57 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHh
Confidence            4799999999999999998876

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.67  E-value=0.00062  Score=46.52  Aligned_cols=24  Identities=38%  Similarity=0.652  Sum_probs=20.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-+++++|+||+|||++++.|...
T Consensus        43 k~n~lLvG~pGVGKTalv~~LA~r   66 (195)
T d1jbka_          43 KNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEecCCcccHHHHHHHHHH
Confidence            347899999999999999888753

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.65  E-value=0.00055  Score=48.38  Aligned_cols=22  Identities=41%  Similarity=0.465  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -+.++|+.|||||||++-+.+-
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            5789999999999999988874

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.64  E-value=0.00049  Score=46.37  Aligned_cols=21  Identities=33%  Similarity=0.526  Sum_probs=17.5

Q ss_pred             eEE-EEcCCCCcHHHHHHHHHh
Q 028884           35 KLV-LLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~-v~G~~~~GKSsli~~l~~   55 (202)
                      ||+ |.|.+||||||+++.|..
T Consensus         2 kiivi~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            555 579999999999988854

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.63  E-value=0.00057  Score=49.22  Aligned_cols=24  Identities=33%  Similarity=0.552  Sum_probs=20.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-+++++|++|+|||++++.|...
T Consensus        39 k~n~lLVG~~GvGKTalv~~la~r   62 (268)
T d1r6bx2          39 KNNPLLVGESGVGKTAIAEGLAWR   62 (268)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCCcEEECCCCCcHHHHHHHHHHH
Confidence            358899999999999999887753

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.63  E-value=0.00087  Score=47.67  Aligned_cols=25  Identities=20%  Similarity=0.347  Sum_probs=21.9

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+...|++.|+||+|||+|++.+..
T Consensus        38 ~p~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          38 TPLVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHhh
Confidence            3456799999999999999999876

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.60  E-value=0.00033  Score=47.53  Aligned_cols=23  Identities=26%  Similarity=0.408  Sum_probs=20.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...|.+.|.+||||||+.+.|..
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999998865

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.60  E-value=0.00041  Score=48.73  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=20.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -++++|+.|||||||++.+.+-
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            4789999999999999999884

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=96.57  E-value=0.00045  Score=48.73  Aligned_cols=21  Identities=38%  Similarity=0.627  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -+.++|+.|+|||||++.+.+
T Consensus        27 i~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHhC
Confidence            478999999999999999987

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.57  E-value=0.00066  Score=48.02  Aligned_cols=22  Identities=32%  Similarity=0.442  Sum_probs=19.7

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .+.++|+.|||||||++-+.+-
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            5789999999999999988874

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.55  E-value=0.00034  Score=50.12  Aligned_cols=24  Identities=29%  Similarity=0.362  Sum_probs=20.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +.=.++|+|+.|||||||++-+.+
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHh
Confidence            334789999999999999987776

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.54  E-value=0.0032  Score=41.33  Aligned_cols=39  Identities=21%  Similarity=0.200  Sum_probs=27.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhCCC--CCCCccccceeE
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRGQF--DPTSKVTVGASF   70 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~~~--~~~~~~~~~~~~   70 (202)
                      +..-|++-|+-|+|||||++.+....-  .....|+.....
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~lg~~~~V~SPTF~l~~   72 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGIGHQGNVKSPTYTLVE   72 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHTTCCSCCCCCTTTCEE
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhcccccccCCCceEEEE
Confidence            345688999999999999999987432  234455555433

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.52  E-value=0.0006  Score=48.25  Aligned_cols=23  Identities=26%  Similarity=0.251  Sum_probs=20.0

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      =-+.++|+.|||||||++-+.+-
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          32 QIYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHcCC
Confidence            35789999999999999988873

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.52  E-value=0.00083  Score=46.63  Aligned_cols=23  Identities=17%  Similarity=0.385  Sum_probs=20.4

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+.|+|-|++||||||+...|..
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            47889999999999999988865

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.52  E-value=0.00091  Score=46.22  Aligned_cols=23  Identities=22%  Similarity=0.387  Sum_probs=20.2

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ++-|+|.|.+|||||||.+.|..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            46789999999999999998854

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=96.51  E-value=0.00066  Score=48.12  Aligned_cols=22  Identities=23%  Similarity=0.386  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -+.++|+.|+|||||++.+.+-
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4789999999999999999884

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=96.48  E-value=0.0011  Score=47.11  Aligned_cols=25  Identities=24%  Similarity=0.344  Sum_probs=21.6

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ..-.++|.|++|+|||++++.+...
T Consensus        42 ~~~~lll~GppGtGKT~l~~~l~~~   66 (276)
T d1fnna2          42 HYPRATLLGRPGTGKTVTLRKLWEL   66 (276)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHH
Confidence            3457999999999999999988764

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=96.41  E-value=0.00073  Score=47.75  Aligned_cols=21  Identities=29%  Similarity=0.534  Sum_probs=18.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+++.|++|+|||++++.+..
T Consensus        36 ~~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          36 AYLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            478999999999999987754

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=96.41  E-value=0.00084  Score=47.49  Aligned_cols=23  Identities=22%  Similarity=0.260  Sum_probs=20.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      -+.++|+.|+|||||++-+.+-.
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46799999999999999998743

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.40  E-value=0.001  Score=45.30  Aligned_cols=26  Identities=19%  Similarity=0.394  Sum_probs=22.4

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..+.+-|+|-|..||||||+++.|..
T Consensus         6 ~~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           6 GTQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHH
Confidence            34568899999999999999998875

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.37  E-value=0.0011  Score=46.29  Aligned_cols=22  Identities=36%  Similarity=0.637  Sum_probs=19.7

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .++++.|++|+||||+++.+..
T Consensus        46 ~~lll~Gp~G~GKTtla~~iak   67 (231)
T d1iqpa2          46 PHLLFAGPPGVGKTTAALALAR   67 (231)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            3689999999999999998876

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.35  E-value=0.00095  Score=47.79  Aligned_cols=22  Identities=27%  Similarity=0.330  Sum_probs=19.8

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .+.++|+.|||||||++.+.+-
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            5789999999999999999873

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.34  E-value=0.00095  Score=47.71  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -+.++|+.|+|||||++.+.+-
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHCC
Confidence            4689999999999999999884

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=96.33  E-value=0.0011  Score=47.52  Aligned_cols=22  Identities=23%  Similarity=0.329  Sum_probs=18.1

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .+++.|+||+|||++++.+...
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHH
Confidence            3456699999999999988763

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.32  E-value=0.0011  Score=48.78  Aligned_cols=23  Identities=30%  Similarity=0.660  Sum_probs=20.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-.++++|+||||||.|.+.+..
T Consensus        49 ~~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          49 PKNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHhh
Confidence            45789999999999999999876

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.29  E-value=0.0014  Score=44.43  Aligned_cols=25  Identities=20%  Similarity=0.254  Sum_probs=21.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++-|.|.|.+||||||+++.|...
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~~   26 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRSW   26 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHC
Confidence            4677899999999999999988653

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.29  E-value=0.00059  Score=48.30  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=20.5

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      =.++++|+.|||||||++-+.+-
T Consensus        32 e~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcC
Confidence            36889999999999999999874

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.26  E-value=0.0011  Score=47.16  Aligned_cols=21  Identities=29%  Similarity=0.295  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .|+|.|++|+|||||++++..
T Consensus        31 ~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          31 ITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHH
Confidence            578999999999999998875

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.20  E-value=0.0018  Score=45.78  Aligned_cols=24  Identities=21%  Similarity=0.303  Sum_probs=21.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ...+++.|++|+||||+++.+...
T Consensus        52 ~~~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          52 FRAAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            357899999999999999999863

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=96.14  E-value=0.0016  Score=46.27  Aligned_cols=22  Identities=27%  Similarity=0.489  Sum_probs=20.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -.|++.|++|+|||+|++.+..
T Consensus        43 ~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          43 KGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHH
Confidence            3599999999999999999996

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.12  E-value=0.0017  Score=44.87  Aligned_cols=21  Identities=24%  Similarity=0.423  Sum_probs=18.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      =|+|.|+|||||+|+...|..
T Consensus         5 iI~I~GppGSGKgT~ak~La~   25 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAE   25 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            467789999999999988865

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.10  E-value=0.002  Score=44.98  Aligned_cols=23  Identities=22%  Similarity=0.573  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      -++++.|++|+||||+++.+...
T Consensus        34 ~~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          34 PHMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCChHHHHHHHHHH
Confidence            35899999999999999988763

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=96.09  E-value=0.078  Score=37.37  Aligned_cols=88  Identities=16%  Similarity=0.121  Sum_probs=48.8

Q ss_pred             EEEEEEeCCChhhhh-hcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcC-CCCCe-EEEEEeCCCCCCCCCCCh
Q 028884           83 VKFEIWDTAGQERYA-ALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHG-SPDIV-MALVGNKADLHEKREVPA  159 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~-~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p-~ivv~nK~D~~~~~~~~~  159 (202)
                      +.+.++|+|+..... .........+|.++++... +..++......+..+.... ..+.+ .-+|.|+.+...    ..
T Consensus       116 ~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~-~~~sl~~~~~~~~~i~~~~~~~~~~~~~vv~N~~~~~~----~~  190 (269)
T d1cp2a_         116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASG-EMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVAN----EY  190 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECS-SHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSSSC----CH
T ss_pred             CCEEEeccCCccchhHHHHHHHhhccCceeeccch-hhhHHHHHHHHHHHHHhhccccceeccceEEeeecCCC----cc
Confidence            578999998643221 1122223457888877776 4455655555555554432 23333 346789887433    23


Q ss_pred             HHHHHHHHHcCCeEEE
Q 028884          160 QDGIEYAEKNGMFFIE  175 (202)
Q Consensus       160 ~~~~~~~~~~~~~~~~  175 (202)
                      +...+++...+.+++.
T Consensus       191 ~~~~~~~~~~~~~~~~  206 (269)
T d1cp2a_         191 ELLDAFAKELGSQLIH  206 (269)
T ss_dssp             HHHHHHHHHHTCCEEE
T ss_pred             chhhhhHhhcCCeEEE
Confidence            4455566667766443

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.04  E-value=0.0026  Score=43.87  Aligned_cols=25  Identities=24%  Similarity=0.320  Sum_probs=21.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +...-|.+.|.+|+|||||.+.|..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4567799999999999999998874

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.02  E-value=0.0022  Score=44.63  Aligned_cols=22  Identities=23%  Similarity=0.457  Sum_probs=19.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .++++.|++|+||||+++.+..
T Consensus        37 ~~~ll~Gp~G~GKTt~a~~la~   58 (224)
T d1sxjb2          37 PHMIISGMPGIGKTTSVHCLAH   58 (224)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCchhhHHHHHH
Confidence            3589999999999999988765

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.00  E-value=0.0016  Score=46.04  Aligned_cols=23  Identities=26%  Similarity=0.520  Sum_probs=20.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .++++.|++|+||||+++.+...
T Consensus        34 ~~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          34 PHLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CCEEEECSTTSSHHHHHHTHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHh
Confidence            36999999999999999988764

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.97  E-value=0.0018  Score=50.01  Aligned_cols=22  Identities=32%  Similarity=0.703  Sum_probs=20.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -||+++|++|||||-|.++|..
T Consensus        50 sNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ccEEEECCCCCCHHHHHHHHHH
Confidence            3899999999999999999865

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=95.90  E-value=0.0027  Score=45.35  Aligned_cols=23  Identities=17%  Similarity=0.400  Sum_probs=20.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-.+++.|+||+|||++++.+..
T Consensus        45 ~~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          45 PKGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEeeCCCCCCccHHHHHHHH
Confidence            34689999999999999999986

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.89  E-value=0.0027  Score=44.15  Aligned_cols=22  Identities=27%  Similarity=0.643  Sum_probs=19.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ++++.|++|+||||++..+...
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHHH
Confidence            5899999999999999998763

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.88  E-value=0.0027  Score=43.39  Aligned_cols=21  Identities=24%  Similarity=0.428  Sum_probs=18.6

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -|+|-|..||||||+++.|..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999988764

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.82  E-value=0.0032  Score=44.89  Aligned_cols=23  Identities=26%  Similarity=0.423  Sum_probs=20.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-.|++.|+||+|||++++.+..
T Consensus        38 ~~giLL~GppGtGKT~l~~ala~   60 (258)
T d1e32a2          38 PRGILLYGPPGTGKTLIARAVAN   60 (258)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceeEEecCCCCCchHHHHHHHH
Confidence            34699999999999999999887

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=95.77  E-value=0.0022  Score=44.23  Aligned_cols=22  Identities=18%  Similarity=0.407  Sum_probs=19.2

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .+++.|++|+||||++..+...
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~~   47 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSRY   47 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHh
Confidence            4899999999999999977653

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.64  E-value=0.0047  Score=45.19  Aligned_cols=25  Identities=20%  Similarity=0.256  Sum_probs=21.5

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ...+=|.|.|.+|||||||.+.|..
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            4578899999999999999887754

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=95.60  E-value=0.0027  Score=48.08  Aligned_cols=24  Identities=38%  Similarity=0.648  Sum_probs=19.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..-+++++|+||+|||++++.|..
T Consensus        42 ~k~n~llvG~~GvGKtaiv~~la~   65 (387)
T d1qvra2          42 TKNNPVLIGEPGVGKTAIVEGLAQ   65 (387)
T ss_dssp             SCCCCEEEECTTSCHHHHHHHHHH
T ss_pred             CCCCCeEECCCCCCHHHHHHHHHH
Confidence            345679999999999999975553

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=95.60  E-value=0.0039  Score=47.45  Aligned_cols=23  Identities=22%  Similarity=0.346  Sum_probs=20.4

Q ss_pred             eEEEEcCCCCcHHHHHHHHHhCC
Q 028884           35 KLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      =|+|.|++||||||.+..++...
T Consensus       160 liLvtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         160 IILVTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             eEEEEcCCCCCccHHHHHHhhhh
Confidence            38999999999999999998743

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.56  E-value=0.0034  Score=45.00  Aligned_cols=24  Identities=17%  Similarity=0.364  Sum_probs=21.1

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-.|++.|++|+|||+|++.+...
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcchhHHHHHHHH
Confidence            456999999999999999999873

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.41  E-value=0.0075  Score=43.58  Aligned_cols=24  Identities=21%  Similarity=0.351  Sum_probs=20.2

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHH
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFV   54 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~   54 (202)
                      ...+=|.|-|.+|||||||...+.
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHH
Confidence            346889999999999999987664

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.39  E-value=0.0049  Score=41.98  Aligned_cols=24  Identities=17%  Similarity=0.160  Sum_probs=20.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      --+.|.|++|+|||+|+..+....
T Consensus        24 ~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          24 SITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHHH
Confidence            347899999999999999988644

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.33  E-value=0.005  Score=42.24  Aligned_cols=20  Identities=30%  Similarity=0.378  Sum_probs=17.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 028884           36 LVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~   55 (202)
                      |+|-|..||||||+++.|..
T Consensus         5 IviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            77889999999999988765

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=95.31  E-value=0.0021  Score=47.65  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -+|++.|+||+|||+|++++..
T Consensus        29 h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          29 GGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CCEEEECCGGGCTTHHHHHHHH
T ss_pred             CeEEEECCCCccHHHHHHHHHH
Confidence            4799999999999999998864

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=95.31  E-value=0.0055  Score=45.97  Aligned_cols=25  Identities=20%  Similarity=0.497  Sum_probs=21.7

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .+.-+++++|++|||||-|.++|..
T Consensus        66 ~p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          66 LSKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCcceeeeCCCCccHHHHHHHHHh
Confidence            3456799999999999999999865

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=95.23  E-value=0.0056  Score=42.04  Aligned_cols=23  Identities=30%  Similarity=0.369  Sum_probs=19.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +-|.|.|..||||||+.+.|...
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~   26 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADL   26 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEECCCcCCHHHHHHHHHHC
Confidence            34779999999999999988653

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=95.15  E-value=0.0088  Score=43.88  Aligned_cols=24  Identities=21%  Similarity=0.458  Sum_probs=20.6

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +.-.++++|++|+|||.|...|..
T Consensus        51 p~~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          51 PVGSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCcchhHHHHHHHHh
Confidence            344689999999999999998875

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.13  E-value=0.0055  Score=42.65  Aligned_cols=24  Identities=21%  Similarity=0.170  Sum_probs=20.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      --++|.|+||+|||+|+..+....
T Consensus        35 ~~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          35 SITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHh
Confidence            357899999999999999987643

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=94.98  E-value=0.0014  Score=44.42  Aligned_cols=19  Identities=42%  Similarity=0.651  Sum_probs=16.5

Q ss_pred             EEEcCCCCcHHHHHHHHHh
Q 028884           37 VLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        37 ~v~G~~~~GKSsli~~l~~   55 (202)
                      +|+|+.|+|||||++.+..
T Consensus        28 vi~G~NGsGKStil~Ai~~   46 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFVT   46 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHH
Confidence            5789999999999998853

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.98  E-value=0.0069  Score=42.43  Aligned_cols=24  Identities=17%  Similarity=0.217  Sum_probs=20.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      --++|.|+||+|||+|.-.+....
T Consensus        37 ~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          37 AITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHh
Confidence            357899999999999999887644

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=94.96  E-value=0.0073  Score=41.31  Aligned_cols=22  Identities=32%  Similarity=0.379  Sum_probs=18.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +-|.|.|..||||||+++.|..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999987754

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=94.86  E-value=0.01  Score=39.65  Aligned_cols=24  Identities=42%  Similarity=0.654  Sum_probs=21.1

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .-|++.|++|+||||+.-.|....
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~g   38 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQRG   38 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC
Confidence            468999999999999999988754

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=94.84  E-value=0.01  Score=44.39  Aligned_cols=22  Identities=14%  Similarity=0.247  Sum_probs=19.9

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -.+++.|+||+|||+|.+.+..
T Consensus       155 ~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         155 RYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998876

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.84  E-value=0.0083  Score=41.25  Aligned_cols=20  Identities=35%  Similarity=0.428  Sum_probs=16.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 028884           36 LVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~   55 (202)
                      |+|-|..||||||+++.|..
T Consensus         6 I~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67779999999998877654

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=94.77  E-value=0.009  Score=42.93  Aligned_cols=23  Identities=35%  Similarity=0.444  Sum_probs=19.9

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..-|.|.|..|+|||||+..+..
T Consensus        44 ~~~v~I~GmgGiGKTtLA~~v~~   66 (277)
T d2a5yb3          44 SFFLFLHGRAGSGKSVIASQALS   66 (277)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            34578999999999999999875

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.67  E-value=0.0048  Score=43.02  Aligned_cols=21  Identities=29%  Similarity=0.396  Sum_probs=18.9

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .|+|-|..||||||+++.|..
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999998775

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=94.62  E-value=0.011  Score=39.44  Aligned_cols=24  Identities=38%  Similarity=0.605  Sum_probs=21.0

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      .-|++.|++|+||||+.-.|....
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~G   39 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINKN   39 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcC
Confidence            468999999999999999998744

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=94.54  E-value=0.011  Score=41.27  Aligned_cols=24  Identities=33%  Similarity=0.596  Sum_probs=20.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .--++|.|+||+|||+|+.++...
T Consensus        26 gsl~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          26 DSIILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHH
Confidence            445789999999999999988765

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=94.43  E-value=0.012  Score=43.29  Aligned_cols=24  Identities=21%  Similarity=0.357  Sum_probs=21.5

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..++|.|=|.-|+||||+++.|..
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC
T ss_pred             CceEEEEECCcCCCHHHHHHHHHH
Confidence            468899999999999999998864

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=94.42  E-value=0.014  Score=43.01  Aligned_cols=25  Identities=28%  Similarity=0.282  Sum_probs=22.4

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ..++|.|=|.-|+||||+++.|...
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             ceEEEEEECCccCCHHHHHHHHHHH
Confidence            5789999999999999999988763

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=94.36  E-value=0.0066  Score=44.00  Aligned_cols=19  Identities=32%  Similarity=0.484  Sum_probs=16.7

Q ss_pred             EEEcCCCCcHHHHHHHHHh
Q 028884           37 VLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        37 ~v~G~~~~GKSsli~~l~~   55 (202)
                      +++|+.|+||||+++++..
T Consensus        28 vlvG~NgsGKS~iL~Ai~~   46 (308)
T d1e69a_          28 AIVGPNGSGKSNIIDAIKW   46 (308)
T ss_dssp             EEECCTTTCSTHHHHHHHH
T ss_pred             EEECCCCCcHHHHHHHHHH
Confidence            6899999999999988743

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=94.28  E-value=0.015  Score=42.72  Aligned_cols=20  Identities=20%  Similarity=0.390  Sum_probs=17.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 028884           36 LVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~   55 (202)
                      +++.|+||+|||.|.+.+-.
T Consensus       126 ~l~~G~pG~GKT~la~ala~  145 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGE  145 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHH
Confidence            44579999999999999876

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.27  E-value=0.014  Score=40.66  Aligned_cols=25  Identities=12%  Similarity=0.066  Sum_probs=20.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +.--++|.|++|+|||+|..++...
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            3445789999999999999999863

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=94.26  E-value=0.013  Score=40.67  Aligned_cols=24  Identities=21%  Similarity=0.134  Sum_probs=20.2

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      --++|.|++|+|||+|+..+....
T Consensus        35 ~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          35 SVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHH
Confidence            357799999999999999987643

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.21  E-value=0.014  Score=40.65  Aligned_cols=21  Identities=33%  Similarity=0.523  Sum_probs=19.0

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -|+|=|..||||||+++.|..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            578999999999999999876

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=94.19  E-value=0.016  Score=38.35  Aligned_cols=25  Identities=36%  Similarity=0.644  Sum_probs=21.5

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhCC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRGQ   57 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~~   57 (202)
                      ..-|++.|++|+||||+.-.|....
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHcC
Confidence            3568999999999999998888754

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=94.17  E-value=0.0058  Score=44.20  Aligned_cols=21  Identities=29%  Similarity=0.469  Sum_probs=15.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      =|.|.|.+|||||||.++|..
T Consensus         6 IIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            389999999999999987743

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=94.10  E-value=0.016  Score=39.87  Aligned_cols=21  Identities=19%  Similarity=0.393  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +.+.|++|+|||.|++.+...
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~   59 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNE   59 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            789999999999999988763

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=94.07  E-value=0.011  Score=43.54  Aligned_cols=25  Identities=24%  Similarity=0.396  Sum_probs=22.5

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      ..++|.|=|.-|+||||+++.|...
T Consensus         4 ~~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           4 GVLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHH
Confidence            4689999999999999999999864

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.03  E-value=0.014  Score=44.03  Aligned_cols=22  Identities=23%  Similarity=0.382  Sum_probs=17.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHH
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFV   54 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~   54 (202)
                      +.++ +|+|+.|+|||+++.++.
T Consensus        25 ~~l~-~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          25 SNFT-SIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             CSEE-EEECSTTSSHHHHHHHHH
T ss_pred             CCEE-EEECCCCCCHHHHHHHHH
Confidence            3454 477999999999999874

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=93.99  E-value=0.014  Score=44.34  Aligned_cols=24  Identities=25%  Similarity=0.427  Sum_probs=20.2

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-+++|+|.+|+|||+++..++.+
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHH
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHH
Confidence            457999999999999998777653

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=93.79  E-value=0.016  Score=39.40  Aligned_cols=24  Identities=29%  Similarity=0.465  Sum_probs=20.9

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..-.+++.|++++|||.|++.+..
T Consensus        52 Kkn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          52 KKNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             TCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             CceEEEEECCCCccHHHHHHHHHH
Confidence            346788999999999999998876

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=93.62  E-value=0.02  Score=39.33  Aligned_cols=23  Identities=26%  Similarity=0.491  Sum_probs=18.3

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .--++|.|++|+|||+|+..+..
T Consensus        26 G~~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          26 GRSTLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHH
Confidence            34567889999999999877653

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=93.62  E-value=0.021  Score=40.58  Aligned_cols=20  Identities=30%  Similarity=0.439  Sum_probs=17.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 028884           36 LVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~   55 (202)
                      ++|.|.||+|||+|+..+..
T Consensus        38 ~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          38 IMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            67999999999999988764

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.52  E-value=0.021  Score=39.27  Aligned_cols=21  Identities=14%  Similarity=0.188  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      =|+|=|..||||||+++.|..
T Consensus         5 ~I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           5 LILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            378999999999999988865

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=93.33  E-value=0.016  Score=41.66  Aligned_cols=24  Identities=13%  Similarity=0.148  Sum_probs=16.3

Q ss_pred             EeccCCCCCHHHHHHHHHHHcCCC
Q 028884          175 ETSAKTADNINQLFEEIAKRLPRP  198 (202)
Q Consensus       175 ~~s~~~~~~i~~~~~~l~~~i~~~  198 (202)
                      ..+-+....|-++.+.|+.....+
T Consensus       273 ~~nyRs~~~I~~~an~l~~~n~~~  296 (306)
T d1uaaa1         273 EQNYRSSGRILKAANILIANNPHV  296 (306)
T ss_dssp             CCBSSSCHHHHHHHHHHHHTSCCS
T ss_pred             CCCCCCCHHHHHHHHHHHHcCccc
Confidence            446677777888888877765444

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=93.28  E-value=0.033  Score=40.69  Aligned_cols=23  Identities=26%  Similarity=0.465  Sum_probs=19.0

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHh
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-.++++|++|+|||.+.+.|..
T Consensus        53 ~~~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          53 IGSFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             SEEEEEBSCSSSSHHHHHHHHHH
T ss_pred             ceEEEEECCCcchHHHHHHHHHH
Confidence            34678899999999999987764

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=93.25  E-value=0.026  Score=39.24  Aligned_cols=21  Identities=19%  Similarity=0.145  Sum_probs=18.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      -|.|.|..||||||+.+.|..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998854

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=93.23  E-value=0.019  Score=41.67  Aligned_cols=15  Identities=27%  Similarity=0.727  Sum_probs=13.3

Q ss_pred             EEEEcCCCCcHHHHH
Q 028884           36 LVLLGDSGVGKSCIV   50 (202)
Q Consensus        36 i~v~G~~~~GKSsli   50 (202)
                      ++|.|.+|+||||.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            889999999999755

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=92.67  E-value=0.034  Score=39.36  Aligned_cols=20  Identities=30%  Similarity=0.489  Sum_probs=17.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 028884           36 LVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~   55 (202)
                      ++|.|++|+|||+|+-.+..
T Consensus        32 ~~i~G~~G~GKS~l~l~la~   51 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQLAA   51 (274)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            56899999999999987754

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=92.03  E-value=0.073  Score=37.82  Aligned_cols=25  Identities=24%  Similarity=0.333  Sum_probs=21.6

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +..-.+.+.|++++|||+|++.+..
T Consensus       102 ~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         102 GKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CccEEEEEEcCCCCCHHHHHHHHHH
Confidence            4466788999999999999998886

>d7mdha1 c.2.1.5 (A:23-197) Malate dehydrogenase {Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]

Probab=91.85  E-value=0.34  Score=31.86  Aligned_cols=101  Identities=10%  Similarity=0.106  Sum_probs=55.1

Q ss_pred             CceeeEEEEcC-CCCcHHHHHHHHHhCCCCCCCccccceeEEEEEEEecCCcEEEEEEEeCCChhhh-h-----------
Q 028884           31 NLRVKLVLLGD-SGVGKSCIVLRFVRGQFDPTSKVTVGASFLSQTIALQDSTTVKFEIWDTAGQERY-A-----------   97 (202)
Q Consensus        31 ~~~~~i~v~G~-~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-~-----------   97 (202)
                      .+.+||.|+|. .+.|- +|+-.|..+......                  ..+.++++|.+..... .           
T Consensus        22 k~~~kV~I~GA~G~Ig~-~l~~~La~g~v~g~~------------------~~i~L~L~di~~~~~~l~g~~mdl~d~a~   82 (175)
T d7mdha1          22 KKLVNIAVSGAAGMISN-HLLFKLASGEVFGQD------------------QPIALKLLGSERSFQALEGVAMELEDSLY   82 (175)
T ss_dssp             CCCEEEEEETTTSHHHH-HHHHHHHHTTTTCTT------------------CCEEEEEECCGGGHHHHHHHHHHHHTTTC
T ss_pred             CCCcEEEEECCCcHHHH-HHHHHHHcCcccCCC------------------ceEEEEEecCccccchhcchhhhhccccc
Confidence            46799999997 66775 455566655432211                  1256777777662210 0           


Q ss_pred             ---------hcccccccCccEEEEEEeCCCh--hHHHH--------HHHHHHHHHHcCCCCCeEEEEEeCCC
Q 028884           98 ---------ALAPLYYRGAAVAVVVYDITSP--DSFNK--------AQYWVKELQKHGSPDIVMALVGNKAD  150 (202)
Q Consensus        98 ---------~~~~~~~~~~d~~i~v~d~~~~--~s~~~--------~~~~~~~i~~~~~~~~p~ivv~nK~D  150 (202)
                               ......+.++|++|++-.....  .+-.+        ++.+.+.+.+.+.++.-+++|.|=.|
T Consensus        83 ~~~~~~~~~~~~~~~~~~aDvVvi~ag~~rkpg~tR~Dll~~N~~I~k~~~~~i~~~a~~~~~vlvv~NPvd  154 (175)
T d7mdha1          83 PLLREVSIGIDPYEVFEDVDWALLIGAKPRGPGMERAALLDINGQIFADQGKALNAVASKNVKVLVVGNPCN  154 (175)
T ss_dssp             TTEEEEEEESCHHHHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHH
T ss_pred             ccccCccccccchhhccCCceEEEeeccCCCCCCcHHHHHHHHHHHHHHHHHHHHhhCCCCcEEEEecCcHH
Confidence                     0012236678999988655432  11111        13334445555555666667766555

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=91.63  E-value=0.06  Score=38.67  Aligned_cols=26  Identities=8%  Similarity=0.179  Sum_probs=22.0

Q ss_pred             CCceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           30 KNLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        30 ~~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..+-=|++|+|.+|+|||+|+..+..
T Consensus        40 igrGQr~~I~g~~g~GKT~l~~~i~~   65 (289)
T d1xpua3          40 IGRGQRGLIVAPPKAGKTMLLQNIAQ   65 (289)
T ss_dssp             CBTTCEEEEEECSSSSHHHHHHHHHH
T ss_pred             ccCCCeeeEeCCCCCCHHHHHHHHHH
Confidence            34456899999999999999988876

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=91.13  E-value=0.068  Score=39.72  Aligned_cols=19  Identities=32%  Similarity=0.539  Sum_probs=15.8

Q ss_pred             eEEEEcCCCCcHHHHHHHH
Q 028884           35 KLVLLGDSGVGKSCIVLRF   53 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l   53 (202)
                      -++|.|+||+|||+++.++
T Consensus       165 ~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             EEEEECCTTSTHHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHHH
Confidence            4778999999999988554

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.58  E-value=0.1  Score=32.22  Aligned_cols=25  Identities=12%  Similarity=0.186  Sum_probs=22.5

Q ss_pred             CceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           31 NLRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        31 ~~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ++.+.|.+-|..|+||++|.+.|..
T Consensus         4 kqgf~i~~tg~~~~gk~~ia~al~~   28 (122)
T d1g8fa3           4 KQGFSIVLGNSLTVSREQLSIALLS   28 (122)
T ss_dssp             GCCEEEEECTTCCSCHHHHHHHHHH
T ss_pred             ccceEEEEeCCCCCCHHHHHHHHHH
Confidence            4578999999999999999999875

>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=89.74  E-value=0.55  Score=31.76  Aligned_cols=65  Identities=14%  Similarity=0.050  Sum_probs=43.2

Q ss_pred             EEEEEEeCCChhhhhhcccccccCccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEE-EEEeCCCCCC
Q 028884           83 VKFEIWDTAGQERYAALAPLYYRGAAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMA-LVGNKADLHE  153 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~i-vv~nK~D~~~  153 (202)
                      +.+.++|+++...  ......+..+|.++++...+ ..++....+.+..+++.   +.|++ +|+|+.+...
T Consensus       112 ~d~IiiD~~~~~~--~~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~~~~~---~~~~~giv~N~~~~~~  177 (237)
T d1g3qa_         112 FDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPE-ISCLTDTMKVGIVLKKA---GLAILGFVLNRYGRSD  177 (237)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSC-HHHHHHHHHHHHHHHHT---TCEEEEEEEEEETSCT
T ss_pred             CCEEEEccccccc--ccchhhhhhhhccccccccc-ceecchhhHHHHHHhhh---hhhhhhhhhccccccc
Confidence            5789999987543  23333466799999998875 34455666555555543   56655 7889998543

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=89.52  E-value=0.12  Score=36.61  Aligned_cols=24  Identities=17%  Similarity=0.353  Sum_probs=19.6

Q ss_pred             eeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           33 RVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        33 ~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      .-=+.|.|++++|||+|+-.+...
T Consensus        54 g~itei~G~~gsGKTtl~l~~~~~   77 (263)
T d1u94a1          54 GRIVEIYGPESSGKTTLTLQVIAA   77 (263)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHH
Confidence            345679999999999999887763

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=88.77  E-value=0.15  Score=35.70  Aligned_cols=22  Identities=27%  Similarity=0.554  Sum_probs=19.3

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHh
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      .-|+|.|++|+||+.+.+.+..
T Consensus        24 ~pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          24 CPVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             SCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEECCCCcCHHHHHHHHHH
Confidence            4589999999999999988865

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {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: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=88.26  E-value=0.17  Score=35.97  Aligned_cols=23  Identities=30%  Similarity=0.716  Sum_probs=20.0

Q ss_pred             eeEEEEcCCCCcHHHHHHHHHhC
Q 028884           34 VKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        34 ~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      =|++++|.+|+|||+|+..+..+
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHH
Confidence            37999999999999999888753

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=87.86  E-value=0.17  Score=35.03  Aligned_cols=20  Identities=25%  Similarity=0.268  Sum_probs=17.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 028884           36 LVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~   55 (202)
                      ++|.|+..+||||+++.+.-
T Consensus        44 ~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHHH
Confidence            68999999999999987643

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=87.30  E-value=0.19  Score=34.53  Aligned_cols=20  Identities=20%  Similarity=0.298  Sum_probs=17.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHh
Q 028884           36 LVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~   55 (202)
                      ++|.|+..+||||+++++.-
T Consensus        38 ~iiTGpN~~GKSt~lk~i~l   57 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTAL   57 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhHH
Confidence            68999999999999987653

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=86.86  E-value=0.23  Score=32.89  Aligned_cols=21  Identities=19%  Similarity=0.310  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhC
Q 028884           36 LVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        36 i~v~G~~~~GKSsli~~l~~~   56 (202)
                      |+|+|...||||.+.+++...
T Consensus         2 iLVtGGarSGKS~~AE~l~~~   22 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCccHHHHHHHHHhc
Confidence            689999999999999998753

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=85.45  E-value=0.18  Score=31.39  Aligned_cols=21  Identities=29%  Similarity=0.161  Sum_probs=16.5

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..+|.+++|+|||.++-.+..
T Consensus        10 ~~ll~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1          10 VAHLHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             EEEEECCTTSCTTTHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            346899999999998865554

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-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: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=84.68  E-value=0.39  Score=32.15  Aligned_cols=24  Identities=8%  Similarity=0.106  Sum_probs=21.3

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ....+++-|++|+||++++..+..
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~   37 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPE   37 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999988775

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {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: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=84.39  E-value=0.31  Score=34.39  Aligned_cols=38  Identities=18%  Similarity=0.046  Sum_probs=23.6

Q ss_pred             EEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeE-EEEEeCCC
Q 028884          109 VAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVM-ALVGNKAD  150 (202)
Q Consensus       109 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~-ivv~nK~D  150 (202)
                      .+++|-.. ++.+..+....+..++..   ++|+ -+|+|+.-
T Consensus       200 ~~~lVt~p-e~~~~~~~~r~~~~l~~~---gi~~~~vVvN~v~  238 (296)
T d1ihua1         200 RLVLVARL-QKSTLQEVARTHLELAAI---GLKNQYLVINGVL  238 (296)
T ss_dssp             EEEEEEES-CHHHHHHHHHHHHHHHHH---TCCCEEEEEEEEC
T ss_pred             eeeEecCc-chhHHHHHHHHHHHHHhc---CCCceEEEEcCCc
Confidence            45555443 455677777777777766   3443 56779863

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=83.91  E-value=0.23  Score=35.83  Aligned_cols=14  Identities=43%  Similarity=0.748  Sum_probs=12.9

Q ss_pred             EEEcCCCCcHHHHH
Q 028884           37 VLLGDSGVGKSCIV   50 (202)
Q Consensus        37 ~v~G~~~~GKSsli   50 (202)
                      +++|..|+|||||-
T Consensus        18 lfFGLSGTGKTTLs   31 (313)
T d2olra1          18 VFFGLSGTGKTTLS   31 (313)
T ss_dssp             EEECSTTSSHHHHH
T ss_pred             EEEccCCCCcccce
Confidence            69999999999976

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {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: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=83.90  E-value=0.34  Score=33.99  Aligned_cols=41  Identities=12%  Similarity=0.055  Sum_probs=22.9

Q ss_pred             ccEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCC
Q 028884          107 AAVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKAD  150 (202)
Q Consensus       107 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D  150 (202)
                      .+.++++... +..++..+...++.+.....+-  .-+|.|+.-
T Consensus       183 ~~~~vlV~~p-~~~~~~~~~r~~~~l~~~~~~~--~~iV~N~~~  223 (279)
T d1ihua2         183 RTKVLLVTLP-ETTPVLEAANLQADLERAGIHP--WGWIINNSL  223 (279)
T ss_dssp             TEEEEEEECS-SHHHHHHHHHHHHHHHHTTCCC--CEEEEEEES
T ss_pred             cccceEeccc-cHhHHHHHHHHHHHHHhcCCCc--cEEEEcCCc
Confidence            3455555443 4556667777777776653322  234568754

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {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: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=83.86  E-value=0.27  Score=35.10  Aligned_cols=24  Identities=21%  Similarity=0.407  Sum_probs=20.0

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      +-=|++++|.+|+|||+|+..+..
T Consensus        67 ~GQr~~If~~~g~GKt~ll~~~~~   90 (285)
T d2jdia3          67 RGQRELIIGDRQTGKTSIAIDTII   90 (285)
T ss_dssp             TTCBCEEEESTTSSHHHHHHHHHH
T ss_pred             CCCEEEeecCCCCChHHHHHHHHH
Confidence            344789999999999999877765

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=83.53  E-value=0.37  Score=34.12  Aligned_cols=88  Identities=19%  Similarity=0.152  Sum_probs=44.7

Q ss_pred             EEEEEEeCCChhhhhhcccc-cccCccEEEEEEeCCChhHHHHHHHHHHHHHHc-CCCCCeE-EEEEeCCCCCCCCCCCh
Q 028884           83 VKFEIWDTAGQERYAALAPL-YYRGAAVAVVVYDITSPDSFNKAQYWVKELQKH-GSPDIVM-ALVGNKADLHEKREVPA  159 (202)
Q Consensus        83 ~~~~i~D~~G~~~~~~~~~~-~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~p~-ivv~nK~D~~~~~~~~~  159 (202)
                      +.+.++|+|+.......... ....+|.++++... +..++..+...++.+... ...+.++ .+|.|+.+...    ..
T Consensus       119 ~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~~-~~~s~~~~~~~~~~i~~~~~~~~~~~~gvv~n~~~~~~----~~  193 (289)
T d2afhe1         119 LDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSG-EMMAMYAANNISKGIVKYANSGSVRLGGLICNSRNTDR----ED  193 (289)
T ss_dssp             CSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECS-SHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCTT----HH
T ss_pred             CCeEeeccCCccCHHHHHHHHHhhccceeecccch-hHHHHHHHHHHHHHHHhhhhcccccccceeehhhcchh----hH
Confidence            57889998764322111111 12345666655443 444455555555554432 3445554 36788876322    23


Q ss_pred             HHHHHHHHHcCCeEEE
Q 028884          160 QDGIEYAEKNGMFFIE  175 (202)
Q Consensus       160 ~~~~~~~~~~~~~~~~  175 (202)
                      +....++...+.+++.
T Consensus       194 ~~~~~~~~~~g~~vl~  209 (289)
T d2afhe1         194 ELIIALANKLGTQMIH  209 (289)
T ss_dssp             HHHHHHHHHHTSCEEE
T ss_pred             HHHHHHHHHcCCeEEE
Confidence            3345566666666544

>d5mdha1 c.2.1.5 (A:1-154) Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=83.32  E-value=0.42  Score=30.57  Aligned_cols=24  Identities=13%  Similarity=0.282  Sum_probs=17.1

Q ss_pred             ceeeEEEEcC-CCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGD-SGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~-~~~GKSsli~~l~~~   56 (202)
                      ..+||.|+|. .++|.+... .|..+
T Consensus         2 ~p~KV~IiGA~G~VG~~la~-~l~~~   26 (154)
T d5mdha1           2 EPIRVLVTGAAGQIAYSLLY-SIGNG   26 (154)
T ss_dssp             CCEEEEESSTTSHHHHTTHH-HHHTT
T ss_pred             CceEEEEECCCCHHHHHHHH-HHHHH
Confidence            4689999996 788887544 45543

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=83.05  E-value=0.39  Score=33.92  Aligned_cols=21  Identities=24%  Similarity=0.344  Sum_probs=18.3

Q ss_pred             eEEEEcCCCCcHHHHHHHHHh
Q 028884           35 KLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        35 ~i~v~G~~~~GKSsli~~l~~   55 (202)
                      =+.+.|++++|||+|+..+..
T Consensus        59 itei~G~~~sGKT~l~l~~~~   79 (268)
T d1xp8a1          59 ITEIYGPESGGKTTLALAIVA   79 (268)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEecCCccchHHHHHHHHH
Confidence            566999999999999988776

>d1y7ta1 c.2.1.5 (A:0-153) Malate dehydrogenase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Thermus thermophilus [TaxId: 274]

Probab=82.97  E-value=1.2  Score=28.36  Aligned_cols=26  Identities=19%  Similarity=0.533  Sum_probs=18.4

Q ss_pred             ceeeEEEEcC-CCCcHHHHHHHHHhCCC
Q 028884           32 LRVKLVLLGD-SGVGKSCIVLRFVRGQF   58 (202)
Q Consensus        32 ~~~~i~v~G~-~~~GKSsli~~l~~~~~   58 (202)
                      +.+||.|+|. .++|- +++..|..+..
T Consensus         3 ~p~KV~IiGA~G~VG~-~~a~~l~~~~l   29 (154)
T d1y7ta1           3 APVRVAVTGAAGQIGY-SLLFRIAAGEM   29 (154)
T ss_dssp             CCEEEEESSTTSHHHH-HHHHHHHTTTT
T ss_pred             CCCEEEEECCCCHHHH-HHHHHHHhccc
Confidence            5689999997 78885 55556665443

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=82.86  E-value=0.26  Score=35.72  Aligned_cols=15  Identities=40%  Similarity=0.671  Sum_probs=13.4

Q ss_pred             EEEEcCCCCcHHHHH
Q 028884           36 LVLLGDSGVGKSCIV   50 (202)
Q Consensus        36 i~v~G~~~~GKSsli   50 (202)
                      -+++|..|+|||||-
T Consensus        17 alffGLSGTGKTTLs   31 (318)
T d1j3ba1          17 AVFFGLSGTGKTTLS   31 (318)
T ss_dssp             EEEEECTTSCHHHHT
T ss_pred             EEEEccCCCCccccc
Confidence            489999999999976

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=82.81  E-value=0.42  Score=33.73  Aligned_cols=24  Identities=21%  Similarity=0.299  Sum_probs=19.3

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHh
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVR   55 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~   55 (202)
                      ..-=+.+.|++++|||+|+-.+..
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~   82 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVA   82 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHH
T ss_pred             cceeEEEecCCCcHHHHHHHHHHH
Confidence            344567999999999999877765

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=82.33  E-value=0.3  Score=35.41  Aligned_cols=14  Identities=43%  Similarity=0.748  Sum_probs=13.1

Q ss_pred             EEEcCCCCcHHHHH
Q 028884           37 VLLGDSGVGKSCIV   50 (202)
Q Consensus        37 ~v~G~~~~GKSsli   50 (202)
                      +++|..|+|||||-
T Consensus        18 lfFGLSGTGKTTLs   31 (323)
T d1ii2a1          18 VFFGLSGTGKTTLS   31 (323)
T ss_dssp             EEECCTTSSHHHHH
T ss_pred             EEEccCCCCcccce
Confidence            69999999999987

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {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: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=81.39  E-value=0.5  Score=31.50  Aligned_cols=63  Identities=10%  Similarity=-0.061  Sum_probs=32.5

Q ss_pred             cEEEEEEeCCChhHHHHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCCCCChHHHHHHHHHcCCeEEE
Q 028884          108 AVAVVVYDITSPDSFNKAQYWVKELQKHGSPDIVMALVGNKADLHEKREVPAQDGIEYAEKNGMFFIE  175 (202)
Q Consensus       108 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  175 (202)
                      +.+++|.+....... .....+..+...  .....-+|+|+.|...  ....+-...+.+.++++++-
T Consensus       139 ~~v~~V~~~~~~~~~-~~~~~~~~~~~~--~~~~~gvv~N~~~~~~--~~~~~~~~~l~~~~gi~vlG  201 (224)
T d1byia_         139 LPVILVVGVKLGCIN-HAMLTAQVIQHA--GLTLAGWVANDVTPPG--KRHAEYMTTLTRMIPAPLLG  201 (224)
T ss_dssp             CCEEEEEECSTTHHH-HHHHHHHHHHHT--TCCEEEEEEECCSSCC--TTHHHHHHHHHHHSSSCEEE
T ss_pred             ceeeEEEeeccchhH-HHHHHHHHHhcc--CCccEEEEEeCcCCCc--hHHHHHHHHHHHHhCCCEEE
Confidence            455566665554322 223333444443  2334677889987432  22233345555667887654

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=80.69  E-value=0.46  Score=33.67  Aligned_cols=25  Identities=16%  Similarity=0.337  Sum_probs=20.2

Q ss_pred             ceeeEEEEcCCCCcHHHHHHHHHhC
Q 028884           32 LRVKLVLLGDSGVGKSCIVLRFVRG   56 (202)
Q Consensus        32 ~~~~i~v~G~~~~GKSsli~~l~~~   56 (202)
                      +-=|++++|.+|+|||+|+..+...
T Consensus        66 ~GQr~~Ifg~~g~GKt~l~~~~~~~   90 (276)
T d1fx0a3          66 RGQRELIIGDRQTGKTAVATDTILN   90 (276)
T ss_dssp             TTCBCBEEESSSSSHHHHHHHHHHT
T ss_pred             CCceEeeccCCCCChHHHHHHHHhh
Confidence            4457899999999999999776553