Citrus Sinensis ID: 030225

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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-
Protein Sequence
MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGRRGFCCS
Secondary Structure (PSIPRED)
cccccHHHHHHHcccccccccccccccEEEccEEEEccEEEEEEEEccccccccccccHHHHHcccEEEEEEEcccHHHHHHHHHHHHHHHHHcccccEEEEEEEcccccccccccHHHHHHHHHHcccEEEEccccccccHHHHHHHHHHHHHHcccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHHccccccccccccEEEEEEEEEEccEEEEEEEEEEcccHHHHHHHHHHHccccEEEEEEEcccHHHHHcHHHHHHHHHHHcccccEEEEEEEcccccccccccHHHHHHHHHHHccEEEEcEccccEcHHHHHHHHHHHHHcHccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MGTGKTSLVLRFVKgqffdfqestigaAFFTQVLSLNEVTIkfdiwdtagqeryhslapmyyrGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAevnpsrqtgmklhteshgggrrgfccs
Flexible Loop (DISEMBL)
mgtgktslVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQElqrqgnpnlIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAevnpsrqtgmklhteshgggrrgfccs
Low Complexity Region (SEG)
MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGaaaavvvYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGRRGFCCS
Disordered region (IsUnstruct)
******SLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL*******************LSFL******AHNVNELFYEIAKRL****************************
Disordered Region (DISOPRED)
MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIA***************************FCC*
Disordered Region (DISEMBL)
MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKL***************
Disordered Region (DISPRO)
***GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGRRGFCCS
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	181	2.2.26 [Sep-21-2011]
P31583	200	Ras-related protein RHN1	N/A	no	1.0	0.905	0.675	4e-71
P29687	200	Ras-related protein Rab5	N/A	no	1.0	0.905	0.664	1e-70
P31582	200	Ras-related protein RABF2	yes	no	1.0	0.905	0.653	2e-67
Q9SN68	200	Ras-related protein RABF2	no	no	1.0	0.905	0.642	7e-67
Q86JP3	201	Ras-related protein Rab-5	yes	no	0.994	0.895	0.595	1e-61
P51147	216	Ras-related protein Rab-5	yes	no	0.983	0.824	0.593	4e-60
Q5R7L7	216	Ras-related protein Rab-5	yes	no	0.983	0.824	0.584	7e-60
P51148	216	Ras-related protein Rab-5	yes	no	0.983	0.824	0.584	7e-60
Q58DS9	216	Ras-related protein Rab-5	yes	no	0.994	0.833	0.572	2e-59
P35278	216	Ras-related protein Rab-5	yes	no	0.983	0.824	0.584	2e-59

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

 Score =  266 bits (681), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 123/182 (67%), Positives = 146/182 (80%), Gaps = 1/182 (0%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           MG GK+SLV+RFVKGQF +FQESTIGAAFF+  L++N  T+KF+IWDTAGQERYHSLAPM
Sbjct: 19  MGAGKSSLVIRFVKGQFLEFQESTIGAAFFSSTLAVNNATVKFEIWDTAGQERYHSLAPM 78

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAAAA++VYDITS DSF RAKKWVQELQ+QGNPN++M L  NK DLE++RKV  EE 
Sbjct: 79  YYRGAAAAIIVYDITSSDSFARAKKWVQELQKQGNPNMVMALAGNKADLEDRRKVTAEEA 138

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ-TGMKLHTESHGGGRRGFC 179
            LYA+ENGL F+ETSAK+A NVN +FYEIAKRL    P++   GM L   +  G R   C
Sbjct: 139 RLYAEENGLFFMETSAKTAVNVNAIFYEIAKRLPRAQPAQNPAGMVLVDRAAEGTRATSC 198

Query: 180 CS 181
           C+
Sbjct: 199 CT 200

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 =  265 bits (678), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 121/182 (66%), Positives = 146/182 (80%), Gaps = 1/182 (0%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           MG GK+SLV+RFVKGQF +FQESTIGAAFF+  +S+N  T+KF+IWDTAGQERYHSLAPM
Sbjct: 19  MGAGKSSLVIRFVKGQFLEFQESTIGAAFFSSTVSVNNATVKFEIWDTAGQERYHSLAPM 78

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAAAA++VYDITS +S  RAKKWVQELQ+QGNPN++M L  NK DLE+KRKV  EE 
Sbjct: 79  YYRGAAAAIIVYDITSTESLARAKKWVQELQKQGNPNMVMALAGNKADLEDKRKVTAEEA 138

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ-TGMKLHTESHGGGRRGFC 179
            LYA+ENGL F+ETSAK+A NVN++FYEIAKRL    P++   GM L  +   G +   C
Sbjct: 139 RLYAEENGLFFMETSAKTATNVNDIFYEIAKRLPRAQPAQNPAGMVLEDKPAQGSQAASC 198

Query: 180 CS 181
           C+
Sbjct: 199 CT 200

Protein transport. Probably involved in vesicular traffic.

Nicotiana tabacum (taxid: 4097)

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

 Score =  254 bits (650), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 119/182 (65%), Positives = 142/182 (78%), Gaps = 1/182 (0%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           +G GK+SLVLRFVK QF +FQESTIGAAFF+Q L++N+ T+KF+IWDTAGQERYHSLAPM
Sbjct: 19  VGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPM 78

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAAAA++V+DIT+  SFERAKKWVQELQ QGNPN++M L  NK DL + RKV  EE 
Sbjct: 79  YYRGAAAAIIVFDITNQASFERAKKWVQELQAQGNPNMVMALAGNKADLLDARKVSAEEA 138

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ-TGMKLHTESHGGGRRGFC 179
           E+YAQEN L F+ETSAK+A NV ++FYEIAKRL  V P+   TGM L            C
Sbjct: 139 EIYAQENSLFFMETSAKTATNVKDIFYEIAKRLPRVQPAENPTGMVLPNGPGATAVSSSC 198

Query: 180 CS 181
           C+
Sbjct: 199 CA 200

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  253 bits (645), Expect = 7e-67,   Method: Compositional matrix adjust.
 Identities = 117/182 (64%), Positives = 143/182 (78%), Gaps = 1/182 (0%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           +G GK+SLVLRFVK QF +FQESTIGAAFF+Q L++N+ T+KF+IWDTAGQERYHSLAPM
Sbjct: 19  VGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPM 78

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAAAA++V+D+T+  SFERAKKWVQELQ QGNPN++M L  NK DL + RKV  E+ 
Sbjct: 79  YYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDA 138

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ-TGMKLHTESHGGGRRGFC 179
           + YAQENGL F+ETSAK+A NV E+FYEIA+RL  V P+   TGM L   +        C
Sbjct: 139 QTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPTENPTGMVLPDRAMDRAVSSSC 198

Query: 180 CS 181
           C+
Sbjct: 199 CA 200

Endosomal protein that may be involved in endocytosis.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  235 bits (600), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 109/183 (59%), Positives = 140/183 (76%), Gaps = 3/183 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+SLVLRFV+G F D+QESTIGAAF  Q + LN+ T+KF+IWDTAGQERYH+LAPMY
Sbjct: 19  AVGKSSLVLRFVRGHFLDYQESTIGAAFLAQTVCLNDTTVKFEIWDTAGQERYHTLAPMY 78

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA AA+VVYDI S DSFERA KWV+ELQRQG+PN+++ L  NK+DL  KRKV+  E +
Sbjct: 79  YRGAQAAIVVYDIRSEDSFERAIKWVKELQRQGSPNIVIALAGNKLDLAAKRKVETAEAQ 138

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKL---HTESHGGGRRGF 178
            YA+ENGL F+ETSAK++ NVNELF EIAK+L +   +R    ++     ++   G++  
Sbjct: 139 QYAEENGLLFMETSAKTSQNVNELFVEIAKKLPKTPTTRPGSGRVAIAPIDNGNTGKKNK 198

Query: 179 CCS 181
           CC+
Sbjct: 199 CCN 201

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 =  230 bits (586), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 111/187 (59%), Positives = 136/187 (72%), Gaps = 9/187 (4%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+SLVLRFVKGQF ++QESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMY
Sbjct: 31  AVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMY 90

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA AA+VVYDIT+ D+F RAK WV+ELQRQ +PN+++ L  NK DL  KR V+ +E +
Sbjct: 91  YRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQ 150

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL-------AEVNPSRQTGMKLHTESHGGG 174
            YA +N L F+ETSAK+A NVNE+F  IAK+L       A   PSR  G+ L   S    
Sbjct: 151 AYADDNSLLFMETSAKTAMNVNEIFMAIAKKLPKNEPQNAAGAPSRNRGVDLQENSPAS- 209

Query: 175 RRGFCCS 181
            R  CCS
Sbjct: 210 -RSQCCS 215

Protein transport. Probably involved in vesicular traffic.

Canis familiaris (taxid: 9615)

>sp|Q5R7L7|RAB5C_PONAB Ras-related protein Rab-5C OS=Pongo abelii GN=RAB5C PE=2 SV=1

 Score =  229 bits (584), Expect = 7e-60,   Method: Compositional matrix adjust.
 Identities = 107/183 (58%), Positives = 135/183 (73%), Gaps = 5/183 (2%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GK+SLVLRFVKGQF ++QESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMYYR
Sbjct: 33  GKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYR 92

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
           GA AA+VVYDIT+ D+F RAK WV+ELQRQ +PN+++ L  NK DL  KR V+ +E + Y
Sbjct: 93  GAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQAY 152

Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMK-----LHTESHGGGRRGF 178
           A +N L F+ETSAK+A NVNE+F  IAK+L +  P   TG       +  + +    R  
Sbjct: 153 ADDNSLLFMETSAKTAMNVNEIFMAIAKKLPKNEPQNATGAPGRNRGVDLQENNPASRSQ 212

Query: 179 CCS 181
           CCS
Sbjct: 213 CCS 215

Protein transport. Probably involved in vesicular traffic.

Pongo abelii (taxid: 9601)

>sp|P51148|RAB5C_HUMAN Ras-related protein Rab-5C OS=Homo sapiens GN=RAB5C PE=1 SV=2

 Score =  229 bits (584), Expect = 7e-60,   Method: Compositional matrix adjust.
 Identities = 107/183 (58%), Positives = 135/183 (73%), Gaps = 5/183 (2%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GK+SLVLRFVKGQF ++QESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMYYR
Sbjct: 33  GKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYR 92

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
           GA AA+VVYDIT+ D+F RAK WV+ELQRQ +PN+++ L  NK DL  KR V+ +E + Y
Sbjct: 93  GAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQAY 152

Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMK-----LHTESHGGGRRGF 178
           A +N L F+ETSAK+A NVNE+F  IAK+L +  P   TG       +  + +    R  
Sbjct: 153 ADDNSLLFMETSAKTAMNVNEIFMAIAKKLPKNEPQNATGAPGRNRGVDLQENNPASRSQ 212

Query: 179 CCS 181
           CCS
Sbjct: 213 CCS 215

Protein transport. Probably involved in vesicular traffic.

Homo sapiens (taxid: 9606)

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

 Score =  228 bits (581), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 106/185 (57%), Positives = 135/185 (72%), Gaps = 5/185 (2%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+SLVLRFVKGQF ++QESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMY
Sbjct: 31  AVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMY 90

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA AA+VVYDIT+ D+F RAK WV+ELQRQ +PN+++ L  NK DL  KR V+ +E +
Sbjct: 91  YRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQ 150

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMK-----LHTESHGGGRR 176
            YA++N L F+ETSAK+A NVNE+F  IAK+L +  P    G       +  + +    R
Sbjct: 151 AYAEDNSLLFMETSAKTAMNVNEIFMAIAKKLPKNEPQNAAGAPGRNRGVDLQENNPASR 210

Query: 177 GFCCS 181
             CCS
Sbjct: 211 SQCCS 215

Protein transport. Probably involved in vesicular traffic.

Bos taurus (taxid: 9913)

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

 Score =  228 bits (580), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 107/183 (58%), Positives = 133/183 (72%), Gaps = 5/183 (2%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GK+SLVLRFVKGQF ++QESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMYYR
Sbjct: 33  GKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYR 92

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
           GA AA+VVYDIT+ D+F RAK WV+ELQRQ +PN+++ L  NK DL  KR V+ +E + Y
Sbjct: 93  GAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQAY 152

Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHT-----ESHGGGRRGF 178
           A +N L F+ETSAK+A NVNE+F  IAK+L +  P    G    T     +      R  
Sbjct: 153 ADDNSLLFMETSAKTAMNVNEIFMAIAKKLPKNEPQNAAGAPGRTRGVDLQESNPASRSQ 212

Query: 179 CCS 181
           CCS
Sbjct: 213 CCS 215

Protein transport. Probably involved in vesicular traffic.

Mus musculus (taxid: 10090)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	181
225445266	200	PREDICTED: ras-related protein RHN1 isof	1.0	0.905	0.845	3e-85
224142139	199	predicted protein [Populus trichocarpa]	1.0	0.909	0.845	7e-85
255546521	199	protein with unknown function [Ricinus c	1.0	0.909	0.839	6e-84
357521023	190	Ras-related protein Rab-5C [Medicago tru	1.0	0.952	0.812	8e-84
356511351	199	PREDICTED: ras-related protein RHN1-like	0.994	0.904	0.802	9e-81
356527789	199	PREDICTED: ras-related protein RHN1-like	0.994	0.904	0.796	2e-79
224070895	200	predicted protein [Populus trichocarpa]	1.0	0.905	0.745	2e-78
359482942	199	PREDICTED: ras-related protein RHN1-like	0.994	0.904	0.751	5e-76
168054193	201	Rab5/RabF-family small GTPase [Physcomit	1.0	0.900	0.683	8e-72
148908627	198	unknown [Picea sitchensis]	0.994	0.909	0.707	1e-71

>gi|225445266|ref|XP_002284542.1| PREDICTED: ras-related protein RHN1 isoform 1 [Vitis vinifera] gi|359484588|ref|XP_003633124.1| PREDICTED: ras-related protein RHN1 isoform 2 [Vitis vinifera] gi|297738837|emb|CBI28082.3| unnamed protein product [Vitis vinifera]

 Score =  319 bits (817), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 153/181 (84%), Positives = 162/181 (89%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           MGTGKTSLVLRFVKGQF+DFQESTIGAAFFTQVLSLNE TIKFDIWDTAGQERYHSLAPM
Sbjct: 19  MGTGKTSLVLRFVKGQFYDFQESTIGAAFFTQVLSLNEATIKFDIWDTAGQERYHSLAPM 78

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNL+M LVANK DLE KR+V+NE+G
Sbjct: 79  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLLMILVANKADLETKREVENEKG 138

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGRRGFCC 180
           E YA+ENGL F ETSAK+A NVNELFYEIAK LA+  PSR  G+KLH  S   GRR FCC
Sbjct: 139 EQYAKENGLLFFETSAKTAQNVNELFYEIAKNLAKACPSRPGGIKLHRRSQERGRRLFCC 198

Query: 181 S 181
           S
Sbjct: 199 S 199

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224142139|ref|XP_002324416.1| predicted protein [Populus trichocarpa] gi|222865850|gb|EEF02981.1| predicted protein [Populus trichocarpa]

 Score =  318 bits (814), Expect = 7e-85,   Method: Compositional matrix adjust.
 Identities = 153/181 (84%), Positives = 160/181 (88%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           MGTGKTSLVLRFVKGQF +FQESTIGAAFFTQVLSLNE TIKFDIWDTAGQERYHSLAPM
Sbjct: 19  MGTGKTSLVLRFVKGQFLEFQESTIGAAFFTQVLSLNEATIKFDIWDTAGQERYHSLAPM 78

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAAAAVVVYDITSMDSFERAKKWV ELQRQGNPNLIMFLV NKVDL++KRKV  EEG
Sbjct: 79  YYRGAAAAVVVYDITSMDSFERAKKWVTELQRQGNPNLIMFLVGNKVDLQQKRKVGIEEG 138

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGRRGFCC 180
           E YA+ENG+ FLETSAK+A NVNELFYEIAKRLA+  PSR  GMKLH       RR FCC
Sbjct: 139 EQYAKENGMVFLETSAKTAQNVNELFYEIAKRLAKKAPSRPIGMKLHRRPQETRRRMFCC 198

Query: 181 S 181
           S
Sbjct: 199 S 199

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255546521|ref|XP_002514320.1| protein with unknown function [Ricinus communis] gi|223546776|gb|EEF48274.1| protein with unknown function [Ricinus communis]

 Score =  315 bits (806), Expect = 6e-84,   Method: Compositional matrix adjust.
 Identities = 152/181 (83%), Positives = 159/181 (87%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNE TIKFDIWDTAGQERYHSLAPM
Sbjct: 19  MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEATIKFDIWDTAGQERYHSLAPM 78

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAAAAVVVYDITS DSFERAK+WV ELQRQGNPNLIMFL ANKVDL +KRKV +EEG
Sbjct: 79  YYRGAAAAVVVYDITSTDSFERAKRWVLELQRQGNPNLIMFLAANKVDLGDKRKVASEEG 138

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGRRGFCC 180
           E YA+ENGL FLETSAK+A NVNELFYEIAK+LA+  PSR TGMKL        R  FCC
Sbjct: 139 EQYAKENGLVFLETSAKTAQNVNELFYEIAKKLAKAAPSRPTGMKLQNRQPERSRGMFCC 198

Query: 181 S 181
           S
Sbjct: 199 S 199

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357521023|ref|XP_003630800.1| Ras-related protein Rab-5C [Medicago truncatula] gi|355524822|gb|AET05276.1| Ras-related protein Rab-5C [Medicago truncatula]

 Score =  314 bits (805), Expect = 8e-84,   Method: Compositional matrix adjust.
 Identities = 147/181 (81%), Positives = 163/181 (90%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           MGTGKTSLVLRFVKGQF ++QESTIGAAFFTQVLSLNE T+KFDIWDTAGQERYHSLAPM
Sbjct: 10  MGTGKTSLVLRFVKGQFSEYQESTIGAAFFTQVLSLNEATVKFDIWDTAGQERYHSLAPM 69

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRG+AAA+VVYDITSMDSF RAKKWV+E+QRQ NPNLIM LVANK DLE++RKV NEEG
Sbjct: 70  YYRGSAAAIVVYDITSMDSFVRAKKWVREVQRQANPNLIMLLVANKADLEDQRKVGNEEG 129

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGRRGFCC 180
           E YA+ENG+SF ETSAK+A NVNELFYEIAKRLA+ NPSRQTG+KLH  +    RR FCC
Sbjct: 130 EEYAKENGMSFFETSAKTAQNVNELFYEIAKRLAKANPSRQTGIKLHGRTQETRRRLFCC 189

Query: 181 S 181
           +
Sbjct: 190 A 190

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356511351|ref|XP_003524390.1| PREDICTED: ras-related protein RHN1-like [Glycine max]

 Score =  304 bits (779), Expect = 9e-81,   Method: Compositional matrix adjust.
 Identities = 146/182 (80%), Positives = 162/182 (89%), Gaps = 2/182 (1%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           MG GKTSLVLRFVKG+F ++QESTIGAAFFT VLSLNE T+KFDIWDTAGQERYHSLAPM
Sbjct: 19  MGAGKTSLVLRFVKGEFSEYQESTIGAAFFTHVLSLNEATVKFDIWDTAGQERYHSLAPM 78

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAAAA+VVYDITSMDSF RAKKWV+E+QRQ N +L MFLVANK DLE++RKV+ EEG
Sbjct: 79  YYRGAAAAIVVYDITSMDSFVRAKKWVREVQRQANSSLTMFLVANKADLEDERKVRYEEG 138

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGRRGF-C 179
           E YA+ENGLSFLETSAK+A NVNELFYEIAKRL + NPSRQ+GMKLHT   G  RRGF C
Sbjct: 139 EEYAKENGLSFLETSAKTAQNVNELFYEIAKRLVKANPSRQSGMKLHTRP-GETRRGFLC 197

Query: 180 CS 181
           C+
Sbjct: 198 CT 199

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356527789|ref|XP_003532489.1| PREDICTED: ras-related protein RHN1-like [Glycine max]

 Score =  300 bits (768), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 145/182 (79%), Positives = 162/182 (89%), Gaps = 2/182 (1%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           MG GKTSLVLRFVKG+F ++Q+STIGAAFFTQVLSLNE T+KFDIWDTAGQERYHSLAPM
Sbjct: 19  MGAGKTSLVLRFVKGEFSEYQDSTIGAAFFTQVLSLNEATVKFDIWDTAGQERYHSLAPM 78

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAAAA+VVYDITSMDSF RAKKWV+E+ RQGN   +MFLVANK DLE +RKV+ EEG
Sbjct: 79  YYRGAAAAIVVYDITSMDSFVRAKKWVREVLRQGNCQNVMFLVANKADLEAERKVRYEEG 138

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGRRG-FC 179
           E YA+ENGLSFLETSAK+A NVNELFYEIAKRLA+ NPSRQ+GMKLH  + G  RRG FC
Sbjct: 139 EEYAKENGLSFLETSAKTAQNVNELFYEIAKRLAKANPSRQSGMKLHNRA-GETRRGFFC 197

Query: 180 CS 181
           C+
Sbjct: 198 CT 199

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224070895|ref|XP_002303285.1| predicted protein [Populus trichocarpa] gi|222840717|gb|EEE78264.1| predicted protein [Populus trichocarpa]

 Score =  296 bits (758), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 135/181 (74%), Positives = 159/181 (87%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           MGTGKTSLVLRFVKGQFFD QE TIGAAFFTQ+LSL E T+KFDIWDTAGQERYHSLAPM
Sbjct: 19  MGTGKTSLVLRFVKGQFFDHQEPTIGAAFFTQILSLTEATVKFDIWDTAGQERYHSLAPM 78

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAAAAV+VYDI+SMD+F RAK+WVQELQRQGNP ++M LVANK+DL+ KR+V+NE+G
Sbjct: 79  YYRGAAAAVIVYDISSMDTFVRAKRWVQELQRQGNPKMVMALVANKLDLDSKREVQNEDG 138

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGRRGFCC 180
           E ++QENG+ F+ETSAK+A N+NELFYEIAKRLA+  PS+ TG+ L+ E+    R  FCC
Sbjct: 139 EQFSQENGMFFMETSAKTAQNINELFYEIAKRLAKAYPSKSTGVNLNDETESRTRNLFCC 198

Query: 181 S 181
           S
Sbjct: 199 S 199

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482942|ref|XP_002284702.2| PREDICTED: ras-related protein RHN1-like [Vitis vinifera] gi|297743285|emb|CBI36152.3| unnamed protein product [Vitis vinifera]

 Score =  288 bits (738), Expect = 5e-76,   Method: Compositional matrix adjust.
 Identities = 136/181 (75%), Positives = 157/181 (86%), Gaps = 1/181 (0%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           MGTGKTSLVLRFVKGQFF+ QE TIGAAFFTQ+LSLNE T+KFDIWDTAGQERYHSLAPM
Sbjct: 19  MGTGKTSLVLRFVKGQFFEHQEPTIGAAFFTQLLSLNEATVKFDIWDTAGQERYHSLAPM 78

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAAAAVVVYDI+++D+F RAKKWVQELQ+QGN NL+M LVANK DLE KR+V  +EG
Sbjct: 79  YYRGAAAAVVVYDISNVDTFVRAKKWVQELQKQGNKNLVMALVANKCDLESKREVNTQEG 138

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGRRGFCC 180
           E  ++ENG+ F+ETSAK++ N+NELFYEIAKRLA   PS+ +GM LH E+   GRR FCC
Sbjct: 139 EKLSEENGMFFIETSAKTSLNINELFYEIAKRLAIAQPSQPSGMNLH-ETENSGRRLFCC 197

Query: 181 S 181
           S
Sbjct: 198 S 198

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|168054193|ref|XP_001779517.1| Rab5/RabF-family small GTPase [Physcomitrella patens subsp. patens] gi|162669099|gb|EDQ55693.1| Rab5/RabF-family small GTPase [Physcomitrella patens subsp. patens]

 Score =  275 bits (702), Expect = 8e-72,   Method: Compositional matrix adjust.
 Identities = 125/183 (68%), Positives = 151/183 (82%), Gaps = 2/183 (1%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           MG GK+SL LRFVKGQFFD+QESTIGAAF TQ L++NE T+KF+IWDTAGQERYHSLAPM
Sbjct: 19  MGAGKSSLALRFVKGQFFDYQESTIGAAFLTQTLAVNETTVKFEIWDTAGQERYHSLAPM 78

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAAAA++VYDIT+ DSF RAKKWVQELQRQGNPNL+M L  NK DL  KRK++ EEG
Sbjct: 79  YYRGAAAAIIVYDITNSDSFGRAKKWVQELQRQGNPNLVMALAGNKADLSSKRKIEAEEG 138

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLH--TESHGGGRRGF 178
           + YA+ENGL F+ETSAK++ NVNELFYEIA++L +  P++ +GM L   + S  G  +  
Sbjct: 139 QSYAEENGLFFMETSAKTSQNVNELFYEIARKLPKAQPAQASGMSLTDGSTSRLGPAKST 198

Query: 179 CCS 181
           CC+
Sbjct: 199 CCA 201

Source: Physcomitrella patens subsp. patens

Species: Physcomitrella patens

Genus: Physcomitrella

Family: Funariaceae

Order: Funariales

Class: Bryopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|148908627|gb|ABR17422.1| unknown [Picea sitchensis]

 Score =  274 bits (700), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 128/181 (70%), Positives = 149/181 (82%), Gaps = 1/181 (0%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           MG GK+S+VLRFV+GQFF++QESTIGAAFF+Q L+LNE TIKF+IWDTAGQERYHSLAPM
Sbjct: 16  MGAGKSSMVLRFVRGQFFEYQESTIGAAFFSQTLALNETTIKFEIWDTAGQERYHSLAPM 75

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAAAA+VVYDITS+DSF RAKKWVQELQRQGNPN++M L  NK DL  KRKV+ EE 
Sbjct: 76  YYRGAAAAIVVYDITSLDSFNRAKKWVQELQRQGNPNMVMTLAGNKADLTAKRKVELEEA 135

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQT-GMKLHTESHGGGRRGFC 179
           + YA ENGL F+ETSAK+A NVNELFY+IAKR+ +  P + T G+ L   S  G R   C
Sbjct: 136 QAYATENGLFFIETSAKTAQNVNELFYDIAKRVLKARPDKSTPGLLLGNRSEEGSRFSSC 195

Query: 180 C 180
           C
Sbjct: 196 C 196

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

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	181
TAIR|locus:2153202	200	RHA1 "RAB homolog 1" [Arabidop	1.0	0.905	0.626	2.8e-57
TAIR|locus:2123010	200	ARA7 [Arabidopsis thaliana (ta	1.0	0.905	0.615	9.6e-57
DICTYBASE|DDB_G0271984	201	rab5A "Rab GTPase" [Dictyostel	0.983	0.885	0.585	8e-53
UNIPROTKB|P51148	216	RAB5C "Ras-related protein Rab	0.983	0.824	0.557	6.5e-51
UNIPROTKB|Q5R7L7	216	RAB5C "Ras-related protein Rab	0.983	0.824	0.557	6.5e-51
UNIPROTKB|P51147	216	RAB5C "Ras-related protein Rab	0.972	0.814	0.572	1.1e-50
UNIPROTKB|Q58DS9	216	RAB5C "Ras-related protein Rab	0.983	0.824	0.551	1.3e-50
UNIPROTKB|F2Z560	216	RAB5C "Uncharacterized protein	0.983	0.824	0.551	1.3e-50
ZFIN|ZDB-GENE-031118-30	221	rab5c "RAB5C, member RAS oncog	0.966	0.791	0.569	1.7e-50
MGI|MGI:105306	216	Rab5c "RAB5C, member RAS oncog	0.983	0.824	0.557	2.2e-50

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

 Score = 589 (212.4 bits), Expect = 2.8e-57, P = 2.8e-57
 Identities = 114/182 (62%), Positives = 135/182 (74%)

Query:     1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
             +G GK+SLVLRFVK QF +FQESTIGAAFF+Q L++N+ T+KF+IWDTAGQERYHSLAPM
Sbjct:    19 VGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPM 78

Query:    61 YYRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
             YYRG       +DIT+  SFERAKKWVQELQ QGNPN++M L  NK DL + RKV  EE 
Sbjct:    79 YYRGAAAAIIVFDITNQASFERAKKWVQELQAQGNPNMVMALAGNKADLLDARKVSAEEA 138

Query:   121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ-TGMKLHTESHGGGRRGFC 179
             E+YAQEN L F+ETSAK+A NV ++FYEIAKRL  V P+   TGM L            C
Sbjct:   139 EIYAQENSLFFMETSAKTATNVKDIFYEIAKRLPRVQPAENPTGMVLPNGPGATAVSSSC 198

Query:   180 CS 181
             C+
Sbjct:   199 CA 200

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

TAIR|locus:2123010 ARA7 [Arabidopsis thaliana (taxid:3702)]

 Score = 584 (210.6 bits), Expect = 9.6e-57, P = 9.6e-57
 Identities = 112/182 (61%), Positives = 136/182 (74%)

Query:     1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
             +G GK+SLVLRFVK QF +FQESTIGAAFF+Q L++N+ T+KF+IWDTAGQERYHSLAPM
Sbjct:    19 VGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPM 78

Query:    61 YYRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
             YYRG       +D+T+  SFERAKKWVQELQ QGNPN++M L  NK DL + RKV  E+ 
Sbjct:    79 YYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDA 138

Query:   121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ-TGMKLHTESHGGGRRGFC 179
             + YAQENGL F+ETSAK+A NV E+FYEIA+RL  V P+   TGM L   +        C
Sbjct:   139 QTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPTENPTGMVLPDRAMDRAVSSSC 198

Query:   180 CS 181
             C+
Sbjct:   199 CA 200

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0005769 "early endosome" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005768 "endosome" evidence=IDA

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

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

GO:0048193 "Golgi vesicle transport" evidence=RCA

GO:0005783 "endoplasmic reticulum" evidence=IDA

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

 Score = 547 (197.6 bits), Expect = 8.0e-53, P = 8.0e-53
 Identities = 106/181 (58%), Positives = 136/181 (75%)

Query:     4 GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
             GK+SLVLRFV+G F D+QESTIGAAF  Q + LN+ T+KF+IWDTAGQERYH+LAPMYYR
Sbjct:    21 GKSSLVLRFVRGHFLDYQESTIGAAFLAQTVCLNDTTVKFEIWDTAGQERYHTLAPMYYR 80

Query:    64 GXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
             G       YDI S DSFERA KWV+ELQRQG+PN+++ L  NK+DL  KRKV+  E + Y
Sbjct:    81 GAQAAIVVYDIRSEDSFERAIKWVKELQRQGSPNIVIALAGNKLDLAAKRKVETAEAQQY 140

Query:   124 AQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ-TG-MKLHTESHGG-GRRGFCC 180
             A+ENGL F+ETSAK++ NVNELF EIAK+L +   +R  +G + +    +G  G++  CC
Sbjct:   141 AEENGLLFMETSAKTSQNVNELFVEIAKKLPKTPTTRPGSGRVAIAPIDNGNTGKKNKCC 200

Query:   181 S 181
             +
Sbjct:   201 N 201

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

UNIPROTKB|P51148 RAB5C "Ras-related protein Rab-5C" [Homo sapiens (taxid:9606)]

 Score = 529 (191.3 bits), Expect = 6.5e-51, P = 6.5e-51
 Identities = 102/183 (55%), Positives = 129/183 (70%)

Query:     4 GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
             GK+SLVLRFVKGQF ++QESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMYYR
Sbjct:    33 GKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYR 92

Query:    64 GXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
             G       YDIT+ D+F RAK WV+ELQRQ +PN+++ L  NK DL  KR V+ +E + Y
Sbjct:    93 GAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQAY 152

Query:   124 AQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMK-----LHTESHGGGRRGF 178
             A +N L F+ETSAK+A NVNE+F  IAK+L +  P   TG       +  + +    R  
Sbjct:   153 ADDNSLLFMETSAKTAMNVNEIFMAIAKKLPKNEPQNATGAPGRNRGVDLQENNPASRSQ 212

Query:   179 CCS 181
             CCS
Sbjct:   213 CCS 215

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

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007032 "endosome organization" evidence=IEA

GO:0030100 "regulation of endocytosis" evidence=IEA

GO:0030139 "endocytic vesicle" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0031901 "early endosome membrane" evidence=IEA

GO:0042470 "melanosome" evidence=IEA

GO:0005811 "lipid particle" evidence=IDA

GO:0019003 "GDP binding" evidence=IDA

GO:0003924 "GTPase activity" evidence=TAS

GO:0006184 "GTP catabolic process" evidence=TAS

UNIPROTKB|Q5R7L7 RAB5C "Ras-related protein Rab-5C" [Pongo abelii (taxid:9601)]

 Score = 529 (191.3 bits), Expect = 6.5e-51, P = 6.5e-51
 Identities = 102/183 (55%), Positives = 129/183 (70%)

Query:     4 GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
             GK+SLVLRFVKGQF ++QESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMYYR
Sbjct:    33 GKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYR 92

Query:    64 GXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
             G       YDIT+ D+F RAK WV+ELQRQ +PN+++ L  NK DL  KR V+ +E + Y
Sbjct:    93 GAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQAY 152

Query:   124 AQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMK-----LHTESHGGGRRGF 178
             A +N L F+ETSAK+A NVNE+F  IAK+L +  P   TG       +  + +    R  
Sbjct:   153 ADDNSLLFMETSAKTAMNVNEIFMAIAKKLPKNEPQNATGAPGRNRGVDLQENNPASRSQ 212

Query:   179 CCS 181
             CCS
Sbjct:   213 CCS 215

GO:0019003 "GDP binding" evidence=ISS

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

 Score = 527 (190.6 bits), Expect = 1.1e-50, P = 1.1e-50
 Identities = 106/185 (57%), Positives = 130/185 (70%)

Query:     4 GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
             GK+SLVLRFVKGQF ++QESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMYYR
Sbjct:    33 GKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYR 92

Query:    64 GXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
             G       YDIT+ D+F RAK WV+ELQRQ +PN+++ L  NK DL  KR V+ +E + Y
Sbjct:    93 GAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQAY 152

Query:   124 AQENGLSFLETSAKSAHNVNELFYEIAKRL-------AEVNPSRQTGMKLHTESHGGGRR 176
             A +N L F+ETSAK+A NVNE+F  IAK+L       A   PSR  G+ L   S     R
Sbjct:   153 ADDNSLLFMETSAKTAMNVNEIFMAIAKKLPKNEPQNAAGAPSRNRGVDLQENSPAS--R 210

Query:   177 GFCCS 181
               CCS
Sbjct:   211 SQCCS 215

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

 Score = 526 (190.2 bits), Expect = 1.3e-50, P = 1.3e-50
 Identities = 101/183 (55%), Positives = 129/183 (70%)

Query:     4 GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
             GK+SLVLRFVKGQF ++QESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMYYR
Sbjct:    33 GKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYR 92

Query:    64 GXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
             G       YDIT+ D+F RAK WV+ELQRQ +PN+++ L  NK DL  KR V+ +E + Y
Sbjct:    93 GAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQAY 152

Query:   124 AQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMK-----LHTESHGGGRRGF 178
             A++N L F+ETSAK+A NVNE+F  IAK+L +  P    G       +  + +    R  
Sbjct:   153 AEDNSLLFMETSAKTAMNVNEIFMAIAKKLPKNEPQNAAGAPGRNRGVDLQENNPASRSQ 212

Query:   179 CCS 181
             CCS
Sbjct:   213 CCS 215

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 = 526 (190.2 bits), Expect = 1.3e-50, P = 1.3e-50
 Identities = 101/183 (55%), Positives = 129/183 (70%)

Query:     4 GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
             GK+SLVLRFVKGQF ++QESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMYYR
Sbjct:    33 GKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYR 92

Query:    64 GXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
             G       YDIT+ D+F RAK WV+ELQRQ +PN+++ L  NK DL  KR V+ +E + Y
Sbjct:    93 GAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQAY 152

Query:   124 AQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMK-----LHTESHGGGRRGF 178
             A++N L F+ETSAK+A NVNE+F  IAK+L +  P    G       +  + +    R  
Sbjct:   153 AEDNSLLFMETSAKTAMNVNEIFMAIAKKLPKNEPQNAAGAPGRNRGVDLQENNPASRSQ 212

Query:   179 CCS 181
             CCS
Sbjct:   213 CCS 215

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

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

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 106/186 (56%), Positives = 129/186 (69%)

Query:     4 GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
             GK+SLVLRFVKGQF ++QESTIGAAF TQ L L++ T+KF+IWDTAGQERYHSLAPMYYR
Sbjct:    34 GKSSLVLRFVKGQFHEYQESTIGAAFLTQTLCLDDTTVKFEIWDTAGQERYHSLAPMYYR 93

Query:    64 GXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
             G       YDIT+ D+F RAK WV+ELQRQ +PN+++ L  NK DL  KR V  +E + Y
Sbjct:    94 GAQAAIVVYDITNTDTFTRAKNWVKELQRQASPNIVIALAGNKADLANKRAVDFQEAQAY 153

Query:   124 AQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGG---------G 174
             A +N L F+ETSAK+A NVNE+F  IAK+L +  P  Q G      + GG         G
Sbjct:   154 ADDNSLLFMETSAKTAMNVNEIFMAIAKKLPKSEP--QGGAGSGGRARGGVDLQETAPQG 211

Query:   175 RRGFCC 180
             R G CC
Sbjct:   212 RSGQCC 217

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

MGI|MGI:105306 Rab5c "RAB5C, member RAS oncogene family" [Mus musculus (taxid:10090)]

 Score = 524 (189.5 bits), Expect = 2.2e-50, P = 2.2e-50
 Identities = 102/183 (55%), Positives = 127/183 (69%)

Query:     4 GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
             GK+SLVLRFVKGQF ++QESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMYYR
Sbjct:    33 GKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYR 92

Query:    64 GXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
             G       YDIT+ D+F RAK WV+ELQRQ +PN+++ L  NK DL  KR V+ +E + Y
Sbjct:    93 GAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQAY 152

Query:   124 AQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHT-----ESHGGGRRGF 178
             A +N L F+ETSAK+A NVNE+F  IAK+L +  P    G    T     +      R  
Sbjct:   153 ADDNSLLFMETSAKTAMNVNEIFMAIAKKLPKNEPQNAAGAPGRTRGVDLQESNPASRSQ 212

Query:   179 CCS 181
             CCS
Sbjct:   213 CCS 215

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0005525 "GTP binding" evidence=IEA

GO:0005768 "endosome" evidence=IEA

GO:0005811 "lipid particle" evidence=ISO

GO:0005886 "plasma membrane" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=TAS

GO:0006810 "transport" evidence=IEA

GO:0007032 "endosome organization" evidence=IDA

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

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0019003 "GDP binding" evidence=ISO

GO:0030100 "regulation of endocytosis" evidence=IDA

GO:0030139 "endocytic vesicle" evidence=IDA

---

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	0.5846	0.9834	0.8240	yes	no
P61271	RAB5A_MACFA	No assigned EC number	0.5775	0.9834	0.8279	N/A	no
Q58DS9	RAB5C_BOVIN	No assigned EC number	0.5729	0.9944	0.8333	yes	no
P51147	RAB5C_CANFA	No assigned EC number	0.5935	0.9834	0.8240	yes	no
P36586	YPT5_SCHPO	No assigned EC number	0.5322	0.9834	0.8436	yes	no
P35278	RAB5C_MOUSE	No assigned EC number	0.5846	0.9834	0.8240	yes	no
Q86JP3	RAB5A_DICDI	No assigned EC number	0.5956	0.9944	0.8955	yes	no
Q5ZHW4	RAB5B_CHICK	No assigned EC number	0.5721	0.9834	0.8279	yes	no
Q5R7L7	RAB5C_PONAB	No assigned EC number	0.5846	0.9834	0.8240	yes	no
P36017	VPS21_YEAST	No assigned EC number	0.5419	0.8397	0.7238	yes	no
P31583	RHN1_NICPL	No assigned EC number	0.6758	1.0	0.905	N/A	no
P31582	RAF2A_ARATH	No assigned EC number	0.6538	1.0	0.905	yes	no
P29687	RAB5_TOBAC	No assigned EC number	0.6648	1.0	0.905	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: GSVIVG00016755001 SubName- Full=Chromosome chr11 scaffold_13, whole genome shotgun sequence; (200 aa) (Vitis vinifera)

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	181
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	1e-102
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	1e-77
pfam00071	162	pfam00071, Ras, Ras family	1e-76
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	6e-71
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	3e-65
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	5e-61
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	6e-59
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	8e-54
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	8e-54
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	1e-51
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	2e-49
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	4e-49
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	6e-49
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	4e-47
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	4e-46
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	5e-46
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	7e-46
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	6e-45
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	4e-43
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	1e-41
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	3e-40
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	3e-39
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	5e-38
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	6e-38
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	8e-38
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	9e-37
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	2e-36
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	5e-36
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	2e-35
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	6e-35
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	1e-34
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	2e-34
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	5e-33
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	5e-33
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	2e-30
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	2e-28
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	2e-28
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	2e-28
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	3e-28
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	1e-27
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	1e-27
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	2e-27
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	2e-27
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	2e-27
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	4e-26
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	1e-25
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	1e-25
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	3e-25
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	3e-25
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	4e-25
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	5e-25
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	5e-25
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	5e-25
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	6e-25
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	1e-24
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	2e-24
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	2e-24
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	2e-24
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	5e-24
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	9e-24
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	2e-23
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	4e-23
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	5e-22
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	1e-20
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	2e-20
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	6e-20
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	7e-20
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	1e-19
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	3e-18
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	2e-17
pfam08477	116	pfam08477, Miro, Miro-like protein	4e-17
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	8e-17
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	1e-16
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	6e-16
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	3e-15
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	1e-14
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	6e-13
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	2e-12
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	3e-12
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	3e-12
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	4e-12
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	9e-12
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	5e-11
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	7e-11
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	1e-09
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	2e-09
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	6e-09
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	3e-08
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	4e-08
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	2e-07
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	2e-07
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	8e-07
cd01887	169	cd01887, IF2_eIF5B, Initiation Factor 2 (IF2)/ euk	3e-06
cd01898	170	cd01898, Obg, Obg GTPase	2e-05
TIGR03918	391	TIGR03918, GTP_HydF, [FeFe] hydrogenase H-cluster	2e-05
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	4e-05
cd00880	161	cd00880, Era_like, E	4e-05
cd04150	159	cd04150, Arf1_5_like, ADP-ribosylation factor-1 (A	6e-05
PLN00023	334	PLN00023, PLN00023, GTP-binding protein; Provision	1e-04
PRK12299	335	PRK12299, obgE, GTPase CgtA; Reviewed	1e-04
pfam04670	230	pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserve	2e-04
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	2e-04
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	5e-04
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	6e-04
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	6e-04
PRK12297	424	PRK12297, obgE, GTPase CgtA; Reviewed	7e-04
PRK13796	365	PRK13796, PRK13796, GTPase YqeH; Provisional	7e-04
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	7e-04
PRK00089	292	PRK00089, era, GTPase Era; Reviewed	0.001
cd01873	195	cd01873, RhoBTB, RhoBTB protein is an atypical mem	0.001
cd04162	164	cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp	0.002
cd04151	158	cd04151, Arl1, ADP ribosylation factor 1 (Arf1)	0.004

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

 Score =  291 bits (747), Expect = e-102
 Identities = 101/153 (66%), Positives = 124/153 (81%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
              GK+S+VLRFVK +F + QESTIGAAF TQ ++L++ T+KF+IWDTAGQERY SLAPM
Sbjct: 10  SSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPM 69

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAAAA+VVYDITS +SFE+AK WV+ELQ  G PN+++ L  NK DLE KR+V  EE 
Sbjct: 70  YYRGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPNIVIALAGNKADLESKRQVSTEEA 129

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           + YA ENGL F+ETSAK+  NVNELF EIA++L
Sbjct: 130 QEYADENGLLFMETSAKTGENVNELFTEIARKL 162

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

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

 Score =  228 bits (583), Expect = 1e-77
 Identities = 73/150 (48%), Positives = 104/150 (69%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKTSL+LRFV  +F +  +STIG  F ++ + ++   +K  IWDTAGQER+ S+   Y
Sbjct: 10  GVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQERFRSITSSY 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA  A++VYD+T+ +SFE   KW+ EL+    PN+ + LV NK DLE++R+V  EE +
Sbjct: 70  YRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPNIPIILVGNKSDLEDERQVSTEEAQ 129

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAK 151
            +A+ENGL F ETSAK+  NV+E F  +A+
Sbjct: 130 QFAKENGLLFFETSAKTGENVDEAFESLAR 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|215692 pfam00071, Ras, Ras family

 Score =  226 bits (578), Expect = 1e-76
 Identities = 76/153 (49%), Positives = 107/153 (69%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            G GK+SL++RF + +F +    TIG  F+T+ + ++  T+K  IWDTAGQER+ +L P+
Sbjct: 8   GGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQERFRALRPL 67

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGA   ++VYDITS DSFE  KKW++E+ R  + N+ + LV NK DLE++R V  EEG
Sbjct: 68  YYRGAQGFLLVYDITSRDSFENVKKWLEEILRHADENVPIVLVGNKCDLEDQRVVSTEEG 127

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           E  A+E GL F+ETSAK+  NV E F E+A+ +
Sbjct: 128 EALAKELGLPFMETSAKTNENVEEAFEELAREI 160

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|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score =  211 bits (540), Expect = 6e-71
 Identities = 74/152 (48%), Positives = 107/152 (70%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL+ RF  G+F +  +STIG  F T+ + ++   +K  IWDTAGQER+ S+   Y
Sbjct: 10  GVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSY 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA  A++VYDIT+ +SFE  + W++EL+   +PN+++ LV NK DLEE+R+V  EE E
Sbjct: 70  YRGAVGALLVYDITNRESFENLENWLKELREYASPNVVIMLVGNKSDLEEQRQVSREEAE 129

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +A+E+GL F ETSAK+  NV E F E+A+ +
Sbjct: 130 AFAEEHGLPFFETSAKTNTNVEEAFEELAREI 161

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score =  197 bits (502), Expect = 3e-65
 Identities = 73/152 (48%), Positives = 102/152 (67%)

Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GKTSLVLR+V+ +F +  EST  A+FF + +++    I   IWDTAGQERYH+L P+YY
Sbjct: 11  VGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYY 70

Query: 63  RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
           R A  A++VYDIT  DSF++ KKW++EL++    N+ + +V NK+DLE +R V   E E 
Sbjct: 71  RDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEE 130

Query: 123 YAQENGLSFLETSAKSAHNVNELFYEIAKRLA 154
           YA+  G    ETSAK+   + ELF  +AKR+ 
Sbjct: 131 YAKSVGAKHFETSAKTGKGIEELFLSLAKRMI 162

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

 Score =  186 bits (474), Expect = 5e-61
 Identities = 68/152 (44%), Positives = 104/152 (68%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKTS++ RF+   F +  ++TIG  F ++ + +++ T++  +WDTAGQER+ SL P Y
Sbjct: 10  SVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQERFRSLIPSY 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
            R ++ AVVVYDIT+  SF+   KW+ +++ +   ++I+ LV NK DL +KR+V  EEGE
Sbjct: 70  IRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGE 129

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             A+EN   F+ETSAK+ HNV +LF +IA+ L
Sbjct: 130 KKAKENNAMFIETSAKAGHNVKQLFKKIAQAL 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|206660 cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-like includes Rab11a, Rab11b, and Rab25

 Score =  181 bits (461), Expect = 6e-59
 Identities = 67/152 (44%), Positives = 99/152 (65%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L+ RF + +F    +STIG  F T+ + ++  TIK  IWDTAGQERY ++   Y
Sbjct: 13  GVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDGKTIKAQIWDTAGQERYRAITSAY 72

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA  A++VYDIT   +FE  ++W++EL+   + N+++ LV NK DL   R V  EE +
Sbjct: 73  YRGAVGALLVYDITKKSTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAK 132

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +A++NGLSF+ETSA    NV E F ++   +
Sbjct: 133 AFAEKNGLSFIETSALDGTNVEEAFKQLLTEI 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|206659 cd01867, Rab8_Rab10_Rab13_like, Rab GTPase families 8, 10, 13 (Rab8, Rab10, Rab13)

 Score =  168 bits (427), Expect = 8e-54
 Identities = 70/152 (46%), Positives = 93/152 (61%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF +  F     STIG  F  + + L+   IK  IWDTAGQER+ ++   Y
Sbjct: 13  GVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTSY 72

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA   ++VYDIT   SFE  K W++ +    + ++   LV NK D+EEKR V  EEGE
Sbjct: 73  YRGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVERMLVGNKCDMEEKRVVSKEEGE 132

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             A+E G+ FLETSAK+  NV E F  +AK +
Sbjct: 133 ALAREYGIKFLETSAKANINVEEAFLTLAKDI 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 =  168 bits (427), Expect = 8e-54
 Identities = 66/154 (42%), Positives = 96/154 (62%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  T+K  IWDTAGQER+ ++   Y
Sbjct: 12  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIWDTAGQERFRTITSSY 71

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA   ++VYD+T  +SF   K+W+QE+ R  + N+   LV NK DL +K+ V   E +
Sbjct: 72  YRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKKVVDYTEAK 131

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
            +A E G+ FLETSAK+A NV E F  +A+ + +
Sbjct: 132 EFADELGIPFLETSAKNATNVEEAFMTMAREIKK 165

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 =  162 bits (412), Expect = 1e-51
 Identities = 67/150 (44%), Positives = 99/150 (66%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+L+F   +F    + TIG  F  ++++++   IK  IWDTAGQE + S+   Y
Sbjct: 14  GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSY 73

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGAA A++VYDIT  ++F     W+++ ++  N N+ + L+ NK DLE +R+V  EEGE
Sbjct: 74  YRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGE 133

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAK 151
            +A+E+GL F+ETSAK+A NV E F   AK
Sbjct: 134 AFAREHGLIFMETSAKTASNVEEAFINTAK 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 =  156 bits (397), Expect = 2e-49
 Identities = 67/152 (44%), Positives = 100/152 (65%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGK+ L+ +F++ +F      TIG  F ++V+++   ++K  IWDTAGQER+ S+   Y
Sbjct: 10  GTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQERFRSVTRSY 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGAA A++VYDITS +SF     W+ + +   +P++++ LV NK DLE+ R+V   E  
Sbjct: 70  YRGAAGALLVYDITSRESFNALTNWLTDARTLASPDIVIILVGNKKDLEDDREVTFLEAS 129

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +AQENGL FLETSA +  NV E F + A+ +
Sbjct: 130 RFAQENGLLFLETSALTGENVEEAFLKCARSI 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|133322 cd04122, Rab14, Rab GTPase family 14 (Rab14)

 Score =  156 bits (396), Expect = 4e-49
 Identities = 68/155 (43%), Positives = 98/155 (63%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           MG GK+ L+ +F + +F      TIG  F T+++ +N   IK  IWDTAGQER+ ++   
Sbjct: 11  MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRS 70

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAA A++VYDIT   ++     W+ + +   NPN ++FL+ NK DLE +R V  EE 
Sbjct: 71  YYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEA 130

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
           + +A ENGL FLE SAK+  NV + F E AK++ +
Sbjct: 131 KQFADENGLLFLECSAKTGENVEDAFLETAKKIYQ 165

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

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

 Score =  155 bits (394), Expect = 6e-49
 Identities = 62/153 (40%), Positives = 96/153 (62%), Gaps = 2/153 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL+LRF    F +   STIG  F  + ++++   +K  IWDTAGQER+ +L   Y
Sbjct: 10  GVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQERFRTLTSSY 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YRGA   ++VYD+T  D+F+    W+ EL     NP+ +  LV NK+D E  R+V  EEG
Sbjct: 70  YRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGNKIDKEN-REVTREEG 128

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           + +A+++ + F+ETSAK+   V + F E+ +++
Sbjct: 129 QKFARKHNMLFIETSAKTRIGVQQAFEELVEKI 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|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score =  151 bits (382), Expect = 4e-47
 Identities = 66/154 (42%), Positives = 92/154 (59%), Gaps = 1/154 (0%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
              GKT +V RF  G F + Q +TIG  F  + L +    +K  IWDTAGQER+ ++   
Sbjct: 12  SNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQS 71

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYR A  A++ YDIT   SFE    W++E+++ G  N+++ L+ NK DLEE+R+V  EE 
Sbjct: 72  YYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEA 131

Query: 121 ELYAQENG-LSFLETSAKSAHNVNELFYEIAKRL 153
              A+  G L+ LETSAK + NV E F  +A  L
Sbjct: 132 CTLAEHYGILAVLETSAKESSNVEEAFLLMATEL 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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score =  150 bits (379), Expect = 4e-46
 Identities = 64/152 (42%), Positives = 98/152 (64%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+L+F   +F    + TIG  F  ++++++   IK  IWDTAGQE + S+   Y
Sbjct: 16  GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSY 75

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGAA A++VYDIT  ++F     W+++ ++  N N+ + L+ NK DL  +R V  EEGE
Sbjct: 76  YRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGE 135

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +A+E+GL F+E SAK+A NV E F + A ++
Sbjct: 136 QFAKEHGLIFMEASAKTAQNVEEAFIKTAAKI 167

Length = 210

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

 Score =  148 bits (375), Expect = 5e-46
 Identities = 60/154 (38%), Positives = 92/154 (59%), Gaps = 2/154 (1%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            G GK++L +RFV G+F +  + TI  ++  Q+  ++  T   DI DTAGQE + ++   
Sbjct: 8   GGVGKSALTIRFVSGEFVEEYDPTIEDSYRKQI-VVDGETYTLDILDTAGQEEFSAMRDQ 66

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEE 119
           Y R     ++VY ITS +SFE  K   +++ R     ++ + LV NK DLE +R+V  EE
Sbjct: 67  YIRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDVPIVLVGNKCDLENERQVSTEE 126

Query: 120 GELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           GE  A+E G  FLETSAK+  N++ELF  + + +
Sbjct: 127 GEALAEEWGCPFLETSAKTNINIDELFNTLVREI 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|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score =  148 bits (374), Expect = 7e-46
 Identities = 65/152 (42%), Positives = 94/152 (61%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT LV RF +G F   Q +TIG  F  + + +    IK  IWDTAGQER+ S+   Y
Sbjct: 17  GVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSY 76

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YR A A ++ YDIT  +SF    +W++E+++  N  +I  LV NK+DL E+R+V  +  E
Sbjct: 77  YRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAE 136

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            ++    + +LETSAK + NV +LF ++A RL
Sbjct: 137 EFSDAQDMYYLETSAKESDNVEKLFLDLACRL 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|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score =  147 bits (372), Expect = 6e-45
 Identities = 74/195 (37%), Positives = 111/195 (56%), Gaps = 16/195 (8%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++++ RF + +F    +STIG  F T+ L +   T+K  IWDTAGQERY ++   Y
Sbjct: 22  GVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAY 81

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA  A++VYDIT   +F+  ++W++EL+   + N+++ +  NK DL   R V  E+G+
Sbjct: 82  YRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQ 141

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEI---------AKRLAEVNPSRQTGMKLH----- 167
             A++ GLSFLETSA  A NV + F  I          K LA    +  +G+        
Sbjct: 142 ALAEKEGLSFLETSALEATNVEKAFQTILLEIYHIISKKALAAQEAAANSGLPGQGTTIN 201

Query: 168 -TESHGGGRRGFCCS 181
             ++ G  +RG CCS
Sbjct: 202 VADTSGNNKRG-CCS 215

Length = 216

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

 Score =  140 bits (356), Expect = 4e-43
 Identities = 64/163 (39%), Positives = 98/163 (60%), Gaps = 5/163 (3%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKTSL+ ++V  +F +  ++TIGA F T+ +++++  +   IWDTAGQER+ SL   +
Sbjct: 10  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQERFQSLGVAF 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRKVKN 117
           YRGA   V+VYD+T+  SFE    W  E   Q +P    N    ++ NK+DLEEKR+V  
Sbjct: 70  YRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEEKRQVST 129

Query: 118 EEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
           ++ + + +  G + + ETSAK A NV++ F  IA+   E    
Sbjct: 130 KKAQQWCKSKGNIPYFETSAKEAINVDQAFETIARLALEQEKE 172

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 =  138 bits (348), Expect = 1e-41
 Identities = 70/187 (37%), Positives = 104/187 (55%), Gaps = 15/187 (8%)

Query: 4   GKTSLVLRFVKGQFFDFQ-ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
           GKTSLV R+V  +F     ++TIGAAF  + + + E  +   IWDTAG ERY +++ +YY
Sbjct: 12  GKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYY 71

Query: 63  RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEK----RKVKNE 118
           RGA AA+V YD+T   SFERAK WV+ELQ     +  ++L   K DL E+    R+V   
Sbjct: 72  RGAKAAIVCYDLTDSSSFERAKFWVKELQ-NLEEHCKIYLCGTKSDLIEQDRSLRQVDFH 130

Query: 119 EGELYAQENGLSFLETSAKSAHNVNELFYEIAK-----RLAEVNPSRQTGMKLHTESHGG 173
           + + +A E      ETS+K+  NV+ELF ++A+        ++N  +   +     S+  
Sbjct: 131 DVQDFADEIKAQHFETSSKTGQNVDELFQKVAEDFVSRANNQMNTEKGVDLGQKKNSYFY 190

Query: 174 GRRGFCC 180
                CC
Sbjct: 191 S----CC 193

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

 Score =  134 bits (340), Expect = 3e-40
 Identities = 60/154 (38%), Positives = 99/154 (64%), Gaps = 2/154 (1%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNE-VTIKFDIWDTAGQERYHSLAPMYY 62
           GK+SL+ RF +G+F +  + T+G  FF++++ +   V IK  +WDTAGQER+ S+   YY
Sbjct: 14  GKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYY 73

Query: 63  RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMF-LVANKVDLEEKRKVKNEEGE 121
           R +   ++V+DIT+ +SFE    W++E +    P+  +F LV +K DLE +R+V  EE E
Sbjct: 74  RNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAE 133

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
             A++ G+ ++ETSA++  NV E F  + + + E
Sbjct: 134 KLAKDLGMKYIETSARTGDNVEEAFELLTQEIYE 167

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|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score =  131 bits (330), Expect = 3e-39
 Identities = 66/138 (47%), Positives = 91/138 (65%)

Query: 22  ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFE 81
           +STIG  F ++ L L+E  ++  +WDTAGQER+ SL P Y R +AAA+VVYDIT+  SFE
Sbjct: 10  QSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFE 69

Query: 82  RAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHN 141
              KW+Q++  +   ++I+ LV NK DL + RKV  EEG   AQE    F ETSAK+ HN
Sbjct: 70  NTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHN 129

Query: 142 VNELFYEIAKRLAEVNPS 159
           +  LF +IA +L  ++ S
Sbjct: 130 IKVLFKKIAAKLPNLDNS 147

Length = 176

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

 Score =  128 bits (324), Expect = 5e-38
 Identities = 66/182 (36%), Positives = 102/182 (56%), Gaps = 3/182 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQES-TIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           G GKT L++RF  G F       T+G  F  +V++++ V +K  IWDTAGQER+ S+   
Sbjct: 10  GVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVTVDGVKVKLQIWDTAGQERFRSVTHA 69

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYR A A +++YD+T+  SF+  + W+ E+      ++++ L+ NK D+  +R VK E+G
Sbjct: 70  YYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVVIMLLGNKADMSGERVVKREDG 129

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE--VNPSRQTGMKLHTESHGGGRRGF 178
           E  A+E G+ F+ETSAK+  NV   F  +AK L    V    +   K+        +   
Sbjct: 130 ERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHRSVEQPDEPKFKIQDYVEKQKKSSG 189

Query: 179 CC 180
           CC
Sbjct: 190 CC 191

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

 Score =  127 bits (322), Expect = 6e-38
 Identities = 56/149 (37%), Positives = 88/149 (59%), Gaps = 2/149 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++F++G F D  + TI    + + + ++      DI DTAGQE + ++   Y
Sbjct: 10  GVGKSALTIQFIQGHFVDDYDPTI-EDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQY 68

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R     ++VY IT   SFE  KK+ +++ R +   ++ + LV NK DLE +R V  EEG
Sbjct: 69  MRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEG 128

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEI 149
           +  A++ G  FLETSAK   NV+E FY++
Sbjct: 129 KELARQWGCPFLETSAKERVNVDEAFYDL 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|197466 smart00010, small_GTPase, Small GTPase of the Ras superfamily; ill-defined subfamily

 Score =  127 bits (321), Expect = 8e-38
 Identities = 56/152 (36%), Positives = 88/152 (57%), Gaps = 2/152 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++FV+G F D  + TI    + + + ++      DI DTAGQE + ++   Y
Sbjct: 12  GVGKSALTIQFVQGHFVDEYDPTI-EDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQY 70

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R     ++VY IT   SFE   K+ +++ R +   ++ + LV NK DLE +R V  EEG
Sbjct: 71  MRTGEGFLLVYSITDRQSFEEIAKFREQILRVKDRDDVPIVLVGNKCDLENERVVSTEEG 130

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKR 152
           +  A++ G  FLETSAK   NV+E FY++ + 
Sbjct: 131 KELARQWGCPFLETSAKERINVDEAFYDLVRE 162

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

 Score =  126 bits (318), Expect = 9e-37
 Identities = 61/172 (35%), Positives = 89/172 (51%), Gaps = 18/172 (10%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT+L+ R V  +F +    TIG     + +      IK  +WDTAGQE Y SL P Y
Sbjct: 15  GVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEY 74

Query: 62  YRGAAAAVVVYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YRGA   ++VYD T  +S +   ++W++EL+     ++ + LV NK+DL +++    E  
Sbjct: 75  YRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEIL 134

Query: 121 ELYAQEN---------------GLSFLETSAKSAH--NVNELFYEIAKRLAE 155
               +E                  + LETSAKS    NVNELF E+ ++L E
Sbjct: 135 NQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKLLE 186

Length = 219

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

 Score =  125 bits (315), Expect = 2e-36
 Identities = 53/160 (33%), Positives = 87/160 (54%), Gaps = 7/160 (4%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSL-NEVTIKFDIWDTAGQERYHSLAP 59
           +G GKTS++ R+V G F    ++TIG  F  +V+       ++  +WD AGQER+  +  
Sbjct: 9   LGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTR 68

Query: 60  MYYRGAAAAVVVYDITSMDSFERAKKWVQELQR--QGNPNLIM--FLVANKVDLEEKR-K 114
           +YY+GA  A++V+D+T   +FE   KW  +L           +   L+ANK DL+++R  
Sbjct: 69  VYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALLLANKCDLKKERLA 128

Query: 115 VKNEEGELYAQENGLS-FLETSAKSAHNVNELFYEIAKRL 153
              E+ + + +ENG   + ETSAK   N+ E    + K +
Sbjct: 129 KDPEQMDQFCKENGFIGWFETSAKENINIEEAMRFLVKNI 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|133306 cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-like

 Score =  122 bits (309), Expect = 5e-36
 Identities = 53/147 (36%), Positives = 83/147 (56%), Gaps = 3/147 (2%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEV--TIKFDIWDTAGQERYHSLAP 59
             GK+S++ RFVKG F    + TIG  F  + + L +    ++  +WDTAGQE + ++  
Sbjct: 10  NVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITK 69

Query: 60  MYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEE 119
            YYRGA A ++V+  T  +SFE  + W ++++ +   ++ M LV  K+DL ++  + NEE
Sbjct: 70  AYYRGAQACILVFSTTDRESFEAIESWKEKVEAECG-DIPMVLVQTKIDLLDQAVITNEE 128

Query: 120 GELYAQENGLSFLETSAKSAHNVNELF 146
            E  A+   L    TS K   NV ELF
Sbjct: 129 AEALAKRLQLPLFRTSVKDDFNVTELF 155

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

 Score =  121 bits (306), Expect = 2e-35
 Identities = 58/157 (36%), Positives = 86/157 (54%), Gaps = 5/157 (3%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY-HSLAPM 60
             GKT L  RF  G+F +  E+TIG  F  + + ++   IK  +WDTAGQER+  S+   
Sbjct: 12  NVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQH 71

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRKVKNEE 119
           YYR   A V VYD+T+M SF     W++E ++   PN +   LV NK DL E+ +V  + 
Sbjct: 72  YYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDL 131

Query: 120 GELYAQENGLSFLETSAK---SAHNVNELFYEIAKRL 153
            + +A  + +   ETSAK      +V  +F  +A +L
Sbjct: 132 AQRFADAHSMPLFETSAKDPSENDHVEAIFMTLAHKL 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|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score =  121 bits (304), Expect = 6e-35
 Identities = 58/149 (38%), Positives = 92/149 (61%), Gaps = 1/149 (0%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKTSL+ RF    F +  +ST+G  F  + + L    I+  IWDTAGQER++S+   Y
Sbjct: 10  GVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAY 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YR A   ++VYDIT  ++F+   KW++ + +  + +  + LV NK+D E  R++  ++GE
Sbjct: 70  YRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGE 129

Query: 122 LYAQE-NGLSFLETSAKSAHNVNELFYEI 149
            +AQ+  G+ F E SAK   NV+E+F ++
Sbjct: 130 KFAQQITGMRFCEASAKDNFNVDEIFLKL 158

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

 Score =  120 bits (302), Expect = 1e-34
 Identities = 61/148 (41%), Positives = 89/148 (60%), Gaps = 1/148 (0%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL+LRF    F     +TIG  F  + + +N   +K  IWDTAGQER+ ++   Y
Sbjct: 16  GVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTY 75

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG    +VVYD+T+ +SF   K+W+QE++ Q   ++   LV NK D  E++ V+ E+  
Sbjct: 76  YRGTHGVIVVYDVTNGESFVNVKRWLQEIE-QNCDDVCKVLVGNKNDDPERKVVETEDAY 134

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEI 149
            +A + G+S  ETSAK   NV E+F  I
Sbjct: 135 KFAGQMGISLFETSAKENINVEEMFNCI 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|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15)

 Score =  118 bits (297), Expect = 2e-34
 Identities = 57/149 (38%), Positives = 85/149 (57%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT L+ RF   +F     STIG  F  + + ++ + ++  IWDTAGQERY ++   Y
Sbjct: 10  GVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQY 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YR A    +VYDI+S  S++   KWV ++       +   L+ NK D E+KR+V +E+G 
Sbjct: 70  YRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGN 129

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIA 150
             A+E G+ F ETSA +  N+ E F  + 
Sbjct: 130 KLAKEYGMDFFETSACTNKNIKESFTRLT 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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score =  116 bits (292), Expect = 5e-33
 Identities = 70/190 (36%), Positives = 101/190 (53%), Gaps = 12/190 (6%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL++ F+     D    TIG  F  + L++    +K  IWDTAGQER+ +L   Y
Sbjct: 24  GVGKSSLLVSFISSSVEDLA-PTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSY 82

Query: 62  YRGAAAAVVVYDITSMDSFER-AKKWVQELQ-RQGNPNLIMFLVANKVDLEEKRKVKNEE 119
           YR A   ++VYD+T  ++F   +  W +E++    N + +  LV NKVD E +R V  EE
Sbjct: 83  YRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREE 142

Query: 120 GELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTG--------MKLHTESH 171
           G   A+E+G  FLE SAK+  NV + F E+A ++ EV    + G        +K   E  
Sbjct: 143 GMALAKEHGCLFLECSAKTRENVEQCFEELALKIMEVPSLLEEGSTAVKRNILKQKPEHQ 202

Query: 172 GGGRRGFCCS 181
                G CCS
Sbjct: 203 PPPNGG-CCS 211

Length = 211

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

 Score =  115 bits (288), Expect = 5e-33
 Identities = 58/153 (37%), Positives = 85/153 (55%), Gaps = 4/153 (2%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKTS + R+    F     ST+G  F  + +  N+  IK  IWDTAGQERY ++   YYR
Sbjct: 13  GKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQERYRTITTAYYR 72

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
           GA   +++YDIT+ +SF   + W  +++     N  + LV NK D+E++R V  E G   
Sbjct: 73  GAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSAERGRQL 132

Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRLAEV 156
           A + G  F E SAK   NV ++F    +RL ++
Sbjct: 133 ADQLGFEFFEASAKENINVKQVF----ERLVDI 161

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

 Score =  108 bits (272), Expect = 2e-30
 Identities = 46/150 (30%), Positives = 85/150 (56%), Gaps = 5/150 (3%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ ++ R+ +G+F      TIG  +  + +S+    ++ + +D +G   Y  +   +
Sbjct: 10  GVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEF 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNP-----NLIMFLVANKVDLEEKRKVK 116
           Y+     ++VYD+T   SFE    W++E++++G P     N+++ + ANK+DL + R V 
Sbjct: 70  YKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVS 129

Query: 117 NEEGELYAQENGLSFLETSAKSAHNVNELF 146
            +EG L+A+  G  + ETSA +   VNE+F
Sbjct: 130 EDEGRLWAESKGFKYFETSACTGEGVNEMF 159

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

 Score =  104 bits (260), Expect = 2e-28
 Identities = 64/165 (38%), Positives = 93/165 (56%), Gaps = 6/165 (3%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++F++  F D  + TI  ++  Q   ++E T   DI DTAGQE Y ++   Y
Sbjct: 15  GVGKSALTIQFIQNHFIDEYDPTIEDSYRKQC-VIDEETCLLDILDTAGQEEYSAMRDQY 73

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R     + VY ITS  SFE    + +++ R +    + M LV NK DL+ +R+V   EG
Sbjct: 74  MRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEG 133

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFY----EIAKRLAEVNPSRQ 161
           +  A+  G+ FLETSAK   NV+E FY    EI K L E  PS++
Sbjct: 134 QELAKSFGIPFLETSAKQRVNVDEAFYELVREIRKYLKEDMPSQK 178

Length = 189

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

 Score =  103 bits (258), Expect = 2e-28
 Identities = 53/153 (34%), Positives = 96/153 (62%), Gaps = 2/153 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L L+F+  +F +  E T  A  + + + L+   ++ +I DTAGQE Y ++   Y
Sbjct: 10  GVGKSALTLQFMYDEFVEDYEPTK-ADSYRKKVVLDGEEVQLNILDTAGQEDYAAIRDNY 68

Query: 62  YRGAAAAVVVYDITSMDSF-ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           +R     ++V+ IT M+SF   A+   Q L+ + + N+ + LV NK DLE+KR+V  EE 
Sbjct: 69  FRSGEGFLLVFSITDMESFTALAEFREQILRVKEDDNVPLLLVGNKCDLEDKRQVSVEEA 128

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
              A++ G++++ETSAK+  NV+++F+++ + +
Sbjct: 129 ANLAEQWGVNYVETSAKTRANVDKVFFDLVREI 161

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

 Score =  103 bits (258), Expect = 2e-28
 Identities = 48/151 (31%), Positives = 87/151 (57%), Gaps = 2/151 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++F++  F    + TI  ++ T+   ++    + DI DTAGQE + ++   Y
Sbjct: 12  GVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCEIDGQWARLDILDTAGQEEFSAMREQY 70

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPN-LIMFLVANKVDLEEKRKVKNEEG 120
            R     ++V+ +T   SFE   K+  ++ R  + +   M LV NK DLE +R+V  EEG
Sbjct: 71  MRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRQVSREEG 130

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
           +  A++  + ++ETSAK   NV++ F+++ +
Sbjct: 131 QELARQLKIPYIETSAKDRVNVDKAFHDLVR 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|133376 cd04176, Rap2, Rap2 family GTPase consists of Rap2a, Rap2b, and Rap2c

 Score =  102 bits (257), Expect = 3e-28
 Identities = 55/153 (35%), Positives = 90/153 (58%), Gaps = 2/153 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++FV G F +  + TI   F+ + + ++      +I DTAG E++ S+  +Y
Sbjct: 11  GVGKSALTVQFVSGTFIEKYDPTI-EDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLY 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            +     +VVY + +  +F+  K    ++ R +G   + + LV NKVDLE +R+V + EG
Sbjct: 70  IKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEG 129

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
              A+E G  F+ETSAKS   VNELF EI +++
Sbjct: 130 RALAEEWGCPFMETSAKSKTMVNELFAEIVRQM 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 = 1e-27
 Identities = 50/151 (33%), Positives = 82/151 (54%), Gaps = 3/151 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++ ++  F D  + TI  ++  QV+   E  +  DI DTAGQE Y ++   Y
Sbjct: 11  GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQY 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRKVKNEEG 120
            R     + V+ I S  SFE    + ++++R  + + + M LV NK DL   R V   +G
Sbjct: 70  MRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVSTRQG 128

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
           +  A+  G+ ++ETSAK+   V E FY + +
Sbjct: 129 QDLAKSYGIPYIETSAKTRQGVEEAFYTLVR 159

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

 Score =  102 bits (256), Expect = 1e-27
 Identities = 57/162 (35%), Positives = 83/162 (51%), Gaps = 4/162 (2%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSL-NEVTIKFDIWDTAGQERYHSLAPMYY 62
           GKTSL+ RF +  F    + TIG  FF++ ++L   + +   +WD  GQ+    +   Y 
Sbjct: 12  GKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQQIGGKMLDKYI 71

Query: 63  RGAAAAVVVYDITSMDSFERAKKW---VQELQRQGNPNLIMFLVANKVDLEEKRKVKNEE 119
            GA A  +VYDIT+  SFE  + W   V+++  +      M LV NK DLE  R+V  E+
Sbjct: 72  YGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTDLEHNRQVTAEK 131

Query: 120 GELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
              +AQEN +  +  SAK+   V   F  IA  L  V  S+ 
Sbjct: 132 HARFAQENDMESIFVSAKTGDRVFLCFQRIAAELLGVKLSQA 173

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

 Score =  101 bits (252), Expect = 2e-27
 Identities = 51/157 (32%), Positives = 85/157 (54%), Gaps = 3/157 (1%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT L+ RF K  F    ++TIG  F  +   +  V     +WDTAGQER+  +A  YYR
Sbjct: 12  GKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQERFKCIASTYYR 71

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQRQGNP-NLIMFLVANKVDLEEKRKVKNEEGEL 122
           GA A ++V+D+T + S E  ++W+++  ++ +P ++++FLV  K DL    +    E + 
Sbjct: 72  GAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDA 131

Query: 123 --YAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN 157
              A+E    +   SA +  NV + F+ +A    E+ 
Sbjct: 132 IKLAREMKAEYWAVSALTGENVRDFFFRVASLTFELG 168

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

 Score =  100 bits (251), Expect = 2e-27
 Identities = 50/151 (33%), Positives = 79/151 (52%), Gaps = 5/151 (3%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GK+ LV RF+   +   Q ST     +         TI  D WDTAGQER+ ++   YY 
Sbjct: 12  GKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYH 71

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
            A A ++V+D+T   +++   KW +EL R+  P +   +VANK+DL+       ++   +
Sbjct: 72  KAHACILVFDVTRKITYKNLSKWYEEL-REYRPEIPCIVVANKIDLDPS---VTQKKFNF 127

Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRLA 154
           A+++ L     SA    NV +LF + A +LA
Sbjct: 128 AEKHNLPLYYVSAADGTNVVKLFQD-AIKLA 157

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

 Score =  100 bits (252), Expect = 2e-27
 Identities = 50/158 (31%), Positives = 84/158 (53%), Gaps = 13/158 (8%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAA-----FFTQVLSLNEVTIKFDIWDTAGQERYHS 56
           GTGKT+ V R + G+F     +T+G       F T     N   I+F++WDTAGQE++  
Sbjct: 10  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHT-----NRGKIRFNVWDTAGQEKFGG 64

Query: 57  LAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK 116
           L   YY     A++++D+TS  +++    W ++L R    N+ + L  NKVD+  K +  
Sbjct: 65  LRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDI--KDRKV 121

Query: 117 NEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA 154
             +   + ++  L + E SAKS +N  + F  +A++L 
Sbjct: 122 KPKQITFHRKKNLQYYEISAKSNYNFEKPFLWLARKLL 159

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

 Score = 97.2 bits (242), Expect = 4e-26
 Identities = 54/153 (35%), Positives = 94/153 (61%), Gaps = 2/153 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++FV+G F +  + TI  ++  QV  ++      +I DTAG E++ ++  +Y
Sbjct: 11  GVGKSALTVQFVQGIFVEKYDPTIEDSYRKQV-EVDGQQCMLEILDTAGTEQFTAMRDLY 69

Query: 62  YRGAAAAVVVYDITSMDSF-ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            +     V+VY IT+  +F +      Q L+ +   ++ M LV NK DLE++R V  E+G
Sbjct: 70  MKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQG 129

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +  A++ G +FLETSAK+  NVNE+FY++ +++
Sbjct: 130 QNLARQWGCAFLETSAKAKINVNEIFYDLVRQI 162

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 = 96.4 bits (240), Expect = 1e-25
 Identities = 48/160 (30%), Positives = 81/160 (50%), Gaps = 15/160 (9%)

Query: 2   GTGKTSLVLRFVKGQFF---DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH--- 55
           G GK+SL+   + G+     D   +T     +  V  L++  +K  + DT G + +    
Sbjct: 7   GVGKSSLLNALLGGEVGEVSDVPGTTRDPDVY--VKELDKGKVKLVLVDTPGLDEFGGLG 64

Query: 56  --SLAPMYYRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEK 112
              LA +  RGA   ++V D T  +S E AK   ++ L+++G P   + LV NK+DL E+
Sbjct: 65  REELARLLLRGADLILLVVDSTDRESEEDAKLLILRRLRKEGIP---IILVGNKIDLLEE 121

Query: 113 RKVKNEEGELY-AQENGLSFLETSAKSAHNVNELFYEIAK 151
           R+V+        A+  G+   E SAK+   V+ELF ++ +
Sbjct: 122 REVEELLRLEELAKILGVPVFEVSAKTGEGVDELFEKLIE 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|133344 cd04144, Ras2, Rat sarcoma (Ras) family 2 of small guanosine triphosphatases (GTPases)

 Score = 96.8 bits (241), Expect = 1e-25
 Identities = 53/178 (29%), Positives = 90/178 (50%), Gaps = 7/178 (3%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT+L ++     F +  + TI  ++  QV+ ++      ++ DTAGQE Y +L   +
Sbjct: 9   GVGKTALTIQLCLNHFVETYDPTIEDSYRKQVV-VDGQPCMLEVLDTAGQEEYTALRDQW 67

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR---QGNPNLIMFLVANKVDLEEKRKVKNE 118
            R     ++VY ITS  +FER +++ +++QR   +   ++ + +V NK D   +R+V  E
Sbjct: 68  IREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTE 127

Query: 119 EGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGRR 176
           EG   A+  G  F+E SAK+  NV   FY + + L +    RQ G            +
Sbjct: 128 EGAALARRLGCEFIEASAKTNVNVERAFYTLVRALRQ---QRQGGQGPKGGPTKKKEK 182

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

 Score = 95.4 bits (238), Expect = 3e-25
 Identities = 52/169 (30%), Positives = 81/169 (47%), Gaps = 21/169 (12%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAP 59
             GKT L++ +    F    E  +   F  ++  + ++   ++  +WDTAGQE Y  L P
Sbjct: 8   AVGKTCLLIVYTTNAF---PEDYVPTVFENYSADVEVDGKPVELGLWDTAGQEDYDRLRP 64

Query: 60  MYYRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDL-------EE 111
           + Y      ++ + + S  SFE  K KW  E+ +   PN+ + LV  K+DL       EE
Sbjct: 65  LSYPDTDVFLICFSVDSPASFENVKEKWYPEV-KHFCPNVPIILVGTKLDLRNDKSTLEE 123

Query: 112 KRK-----VKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
             K     V  E+G+  A+  G + +LE SA +   V E+F E A R A
Sbjct: 124 LSKKKQEPVTYEQGQALAKRIGAVKYLECSALTQEGVREVF-EEAIRAA 171

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

>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 = 95.3 bits (237), Expect = 3e-25
 Identities = 49/154 (31%), Positives = 85/154 (55%), Gaps = 2/154 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+++ ++F+   F D+ + TI  A+ TQ    NE  +  DI DTAGQ  + ++   Y
Sbjct: 12  GVGKSAVTMQFISHSFPDYHDPTIEDAYKTQARIDNEPAL-LDILDTAGQAEFTAMRDQY 70

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R     ++ Y +T   SF+ A ++ + + R +   ++ + LV NKVDLE++R+V  EEG
Sbjct: 71  MRCGEGFIICYSVTDRHSFQEASEFKELITRVRLTEDIPLVLVGNKVDLEQQRQVTTEEG 130

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA 154
              A+E    F ETSA     +++ F+ + + + 
Sbjct: 131 RNLAREFNCPFFETSAALRFYIDDAFHGLVREIR 164

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

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

 Score = 96.5 bits (240), Expect = 4e-25
 Identities = 58/180 (32%), Positives = 89/180 (49%), Gaps = 40/180 (22%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFF-TQVLSLNEVTIKFDIWDTAGQERYHSLAP 59
           M  GKTSL+ R+++ +F D   ST+G AF+  Q    N       IWDTAG+E++H L  
Sbjct: 9   MNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQWGPYN-----ISIWDTAGREQFHGLGS 62

Query: 60  MYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL---------- 109
           MY RGAAA ++ YD++++ S E  +     L    N + +  +V NK+DL          
Sbjct: 63  MYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQE 122

Query: 110 ---------EEKRKVKNEEGELYAQE----NGLS----------FLETSAKSAHNVNELF 146
                    E++R+V  E+ + + +       L             ETSAK+ +NV+ELF
Sbjct: 123 KDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGYNVDELF 182

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

 Score = 94.9 bits (236), Expect = 5e-25
 Identities = 56/151 (37%), Positives = 81/151 (53%), Gaps = 4/151 (2%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SLVLRFVKG F +    TI   +  QV+S ++      I DT G  ++ ++  + 
Sbjct: 11  GVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKSICTLQITDTTGSHQFPAMQRLS 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKK-WVQELQRQGN--PNLIMFLVANKVDLEEKRKVKNE 118
                A ++VY ITS  S E  K  +    + +GN    + + LV NK D    R+V + 
Sbjct: 70  ISKGHAFILVYSITSKQSLEELKPIYELICEIKGNNLEKIPIMLVGNKCDESPSREVSSS 129

Query: 119 EGELYAQENGLSFLETSAKSAHNVNELFYEI 149
           EG   A+    +F+ETSAK+ HNV ELF E+
Sbjct: 130 EGAALARTWNCAFMETSAKTNHNVQELFQEL 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|240284 PTZ00132, PTZ00132, GTP-binding nuclear protein Ran; Provisional

 Score = 95.9 bits (239), Expect = 5e-25
 Identities = 50/153 (32%), Positives = 85/153 (55%), Gaps = 3/153 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT+ V R + G+F      T+G          N   I F++WDTAGQE++  L   Y
Sbjct: 19  GVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGY 78

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y     A++++D+TS  +++    W +++ R    N+ + LV NKVD+++ R+VK  +  
Sbjct: 79  YIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVCE-NIPIVLVGNKVDVKD-RQVKARQIT 136

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLA 154
            + ++N L + + SAKS +N  + F  +A+RL 
Sbjct: 137 FHRKKN-LQYYDISAKSNYNFEKPFLWLARRLT 168

Length = 215

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

 Score = 95.5 bits (237), Expect = 5e-25
 Identities = 51/153 (33%), Positives = 88/153 (57%), Gaps = 3/153 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +T+G      V   N   I+F++WDTAGQE++  L   Y
Sbjct: 5   GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGY 64

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y     A++++D+T+  +++    W ++L R    N+ + L  NKVD+++ RKVK +   
Sbjct: 65  YIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKD-RKVKAKSIT 122

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLA 154
            + ++N L + + SAKS +N  + F  +A++L 
Sbjct: 123 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKLI 154

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

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

 Score = 94.5 bits (235), Expect = 6e-25
 Identities = 54/154 (35%), Positives = 93/154 (60%), Gaps = 3/154 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++FV+G F D  + TI  ++  Q+    +  +  +I DTAG E++ ++  +Y
Sbjct: 11  GVGKSALTVQFVQGIFVDKYDPTIEDSYRKQIEVDCQQCM-LEILDTAGTEQFTAMRDLY 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            +      +VY IT+  SF   +   +++ R +   ++ M LV NK DLE++R V  EEG
Sbjct: 70  IKNGQGFALVYSITAQQSFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVSKEEG 129

Query: 121 ELYAQENG-LSFLETSAKSAHNVNELFYEIAKRL 153
           +  A++ G   FLETSAKS  NV+E+FY++ +++
Sbjct: 130 QNLARQWGNCPFLETSAKSKINVDEIFYDLVRQI 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|178620 PLN03071, PLN03071, GTP-binding nuclear protein Ran; Provisional

 Score = 95.2 bits (237), Expect = 1e-24
 Identities = 56/158 (35%), Positives = 89/158 (56%), Gaps = 13/158 (8%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAA-----FFTQVLSLNEVTIKFDIWDTAGQERYHS 56
           GTGKT+ V R + G+F    E TIG       FFT     N   I+F  WDTAGQE++  
Sbjct: 23  GTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFT-----NCGKIRFYCWDTAGQEKFGG 77

Query: 57  LAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK 116
           L   YY     A++++D+T+  +++    W ++L R    N+ + L  NKVD++  R+VK
Sbjct: 78  LRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCE-NIPIVLCGNKVDVKN-RQVK 135

Query: 117 NEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA 154
            ++   + ++N L + E SAKS +N  + F  +A++LA
Sbjct: 136 AKQVTFHRKKN-LQYYEISAKSNYNFEKPFLYLARKLA 172

Length = 219

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

 Score = 93.7 bits (233), Expect = 2e-24
 Identities = 47/156 (30%), Positives = 81/156 (51%), Gaps = 15/156 (9%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVT----------IKFDIWDTAGQ 51
           G GKT+ + R+   +F     +T+G  F  + +  N             +   +WDTAGQ
Sbjct: 14  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKAFRVHLQLWDTAGQ 73

Query: 52  ERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQG---NPNLIMFLVANKVD 108
           ER+ SL   ++R A   ++++D+TS  SF   + W+ +LQ      NP+++  L+ NK D
Sbjct: 74  ERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCENPDIV--LIGNKAD 131

Query: 109 LEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNE 144
           L ++R+V   +    A + G+ + ETSA +  NV +
Sbjct: 132 LPDQREVSERQARELADKYGIPYFETSAATGQNVEK 167

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

 Score = 93.0 bits (232), Expect = 2e-24
 Identities = 46/171 (26%), Positives = 76/171 (44%), Gaps = 31/171 (18%)

Query: 2   GTGKTSLVLRFVKGQF--------FDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER 53
             GKT L++ +   +F        FD   + +         +++   +   +WDTAGQE 
Sbjct: 10  AVGKTCLLISYTTNKFPTEYVPTVFDNYSANV---------TVDGKQVNLGLWDTAGQEE 60

Query: 54  YHSLAPMYYRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEK 112
           Y  L P+ Y      ++ + + S  SFE  K KW  E+ +   PN+ + LV  K+DL + 
Sbjct: 61  YDRLRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPEI-KHYCPNVPIILVGTKIDLRDD 119

Query: 113 RK-----------VKNEEGELYAQENGLS-FLETSAKSAHNVNELFYEIAK 151
                        +  EEGE  A+E G   ++E SA +   + E+F E  +
Sbjct: 120 GNTLKKLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQEGLKEVFDEAIR 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|206709 cd04137, RheB, Ras Homolog Enriched in Brain (RheB) is a small GTPase

 Score = 93.1 bits (232), Expect = 2e-24
 Identities = 53/144 (36%), Positives = 79/144 (54%), Gaps = 2/144 (1%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GK+SL ++FV+G F +    TI   F +++++        +I DTAGQ+ Y  L   Y  
Sbjct: 13  GKSSLTVQFVEGHFVESYYPTIENTF-SKIITYKGQEYHLEIVDTAGQDEYSILPQKYSI 71

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
           G    ++VY +TS  SFE  K    ++    G  ++ + LV NK DL  +R+V  EEG+ 
Sbjct: 72  GIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHMERQVSAEEGKK 131

Query: 123 YAQENGLSFLETSAKSAHNVNELF 146
            A+  G +FLE+SAK   NV E F
Sbjct: 132 LAESWGAAFLESSAKENENVEEAF 155

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

 Score = 92.2 bits (229), Expect = 5e-24
 Identities = 53/156 (33%), Positives = 82/156 (52%), Gaps = 6/156 (3%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL+ R+V  +F      TIG  F  + L ++   +   IWDTAGQER+ SL   +
Sbjct: 15  GVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPF 74

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQG---NPNLIMFLV-ANKVDLEEKRKVKN 117
           YRG+   ++ + +    SF+    W +E         P    F++  NK+D+  +R+V  
Sbjct: 75  YRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDI-PERQVST 133

Query: 118 EEGELYAQENGLS-FLETSAKSAHNVNELFYEIAKR 152
           EE + + ++NG   + ETSAK A NV   F E  +R
Sbjct: 134 EEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRR 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|232886 TIGR00231, small_GTP, small GTP-binding protein domain

 Score = 91.3 bits (227), Expect = 9e-24
 Identities = 41/151 (27%), Positives = 75/151 (49%), Gaps = 4/151 (2%)

Query: 2   GTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
             GK++L+ R +  +      +      + T V+  +  T KF++ DTAGQE Y ++  +
Sbjct: 11  NVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYDAIRRL 70

Query: 61  YYRGAAAAVVVYDITS-MDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNE 118
           YYR   +++ V+DI   +   E    K  +E+       + + LV NK+DL +  K+K  
Sbjct: 71  YYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKIDLRD-AKLKTH 129

Query: 119 EGELYAQENGLSFLETSAKSAHNVNELFYEI 149
              L+A+ NG   +  SA++  N++  F  +
Sbjct: 130 VAFLFAKLNGEPIIPLSAETGKNIDSAFKIV 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|206713 cd04146, RERG_RasL11_like, Ras-related and Estrogen-Regulated Growth inhibitor (RERG) and Ras-like 11 (RasL11)-like families

 Score = 90.4 bits (225), Expect = 2e-23
 Identities = 46/156 (29%), Positives = 80/156 (51%), Gaps = 6/156 (3%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            G GK++L +RF+  +F    E  + + +  QV +++   +  +I DT GQ++      +
Sbjct: 8   SGVGKSALTVRFLTKRFIGEYEPNLESLYSRQV-TIDGEQVSLEIQDTPGQQQNEDPESL 66

Query: 61  --YYRGAAAAVVVYDITSMDSFERAKKWVQELQR--QGNPNLIMFLVANKVDLEEKRKVK 116
               R A   V+VY IT   SF+   + +Q ++   + +  + + LV NK DL   R+V 
Sbjct: 67  ERSLRWADGFVLVYSITDRSSFDVVSQLLQLIREIKKRDGEIPVILVGNKADLLHSRQVS 126

Query: 117 NEEGELYAQENGLSFLETSA-KSAHNVNELFYEIAK 151
            EEG+  A E G  F E SA ++   V  +F+E+ +
Sbjct: 127 TEEGQKLALELGCLFFEVSAAENYLEVQNVFHELCR 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|133321 cd04121, Rab40, Rab GTPase family 40 (Rab40) contains Rab40a, Rab40b and Rab40c

 Score = 90.4 bits (224), Expect = 4e-23
 Identities = 44/126 (34%), Positives = 73/126 (57%), Gaps = 1/126 (0%)

Query: 26  GAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKK 85
           G  + T  + L+   +K  +WDT+GQ R+ ++   Y RGA   ++VYDIT+  SF+   +
Sbjct: 40  GIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDR 99

Query: 86  WVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNEL 145
           W++E+     P +   LV N++ L  KR+V  E+ + YA+ NG++F E S     N+ E 
Sbjct: 100 WIKEIDEHA-PGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITES 158

Query: 146 FYEIAK 151
           F E+A+
Sbjct: 159 FTELAR 164

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

 Score = 87.2 bits (216), Expect = 5e-22
 Identities = 35/113 (30%), Positives = 58/113 (51%), Gaps = 1/113 (0%)

Query: 40  TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNP-NL 98
           +++  I+D+AGQE +  +    +   A   VVYD+T+  SF    +W+  ++   +  + 
Sbjct: 52  SVELFIFDSAGQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSRWINRVRTHSHGLHT 111

Query: 99  IMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
              LV NK DL ++R+V   + +  AQ N L F ETSAK        F  +A+
Sbjct: 112 PGVLVGNKCDLTDRREVDAAQAQALAQANTLKFYETSAKEGVGYEAPFLSLAR 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|206706 cd04134, Rho3, Ras homology family 3 (Rho3) of small guanosine triphosphatases (GTPases)

 Score = 84.1 bits (208), Expect = 1e-20
 Identities = 53/190 (27%), Positives = 82/190 (43%), Gaps = 29/190 (15%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GKTSL+  F +G F    E T+   F  +   + ++ + ++  +WDTAGQE +  L  + 
Sbjct: 12  GKTSLLNVFTRGYFPQVYEPTV---FENYIHDIFVDGLAVELSLWDTAGQEEFDRLRSLS 68

Query: 62  YRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           Y      ++ + + + DS E  + KW+ E+ R   P + + LVA K DL E R  ++   
Sbjct: 69  YADTHVIMLCFSVDNPDSLENVESKWLAEI-RHHCPGVKLVLVALKCDLREPRNERDRGT 127

Query: 121 ELYAQENGLS---------FLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESH 171
              + E GL+         +LE SAK    VNE F E A+      P            H
Sbjct: 128 HTISYEEGLAVAKRINACRYLECSAKLNRGVNEAFTEAARVALNARPP---------HPH 178

Query: 172 GGGRRGFCCS 181
                  C  
Sbjct: 179 SRA----CTI 184

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

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

 Score = 82.9 bits (205), Expect = 2e-20
 Identities = 48/154 (31%), Positives = 86/154 (55%), Gaps = 3/154 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++FV+  F +  + TI  ++  QV          +I DTAG E++ ++  +Y
Sbjct: 11  GVGKSALTVQFVQNVFIESYDPTIEDSYRKQVEIDGRQCD-LEILDTAGTEQFTAMRELY 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            +     ++VY +TS  S     +  +++ R + + N+ M LV NK DLE+ R+V  E+G
Sbjct: 70  IKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDG 129

Query: 121 -ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             L  Q   + F ETSA+   NV+E+F ++ +++
Sbjct: 130 VSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQI 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|206662 cd01870, RhoA_like, Ras homology family A (RhoA)-like includes RhoA, RhoB and RhoC

 Score = 81.7 bits (202), Expect = 6e-20
 Identities = 58/168 (34%), Positives = 82/168 (48%), Gaps = 23/168 (13%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEV---TIKFDIWDTAGQERYHSLAPM 60
           GKT L++ F K QF +    T+   +   +    EV    ++  +WDTAGQE Y  L P+
Sbjct: 13  GKTCLLIVFSKDQFPEVYVPTVFENYVADI----EVDGKQVELALWDTAGQEDYDRLRPL 68

Query: 61  YYRGAAAAVVVYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDL-------EEK 112
            Y      ++ + I S DS E   +KW  E+ +   PN+ + LV NK DL        E 
Sbjct: 69  SYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTIREL 127

Query: 113 RK-----VKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLA 154
            K     VK EEG   A++     +LE SAK+   V E+F E+A R A
Sbjct: 128 AKMKQEPVKPEEGRAMAEKIGAFGYLECSAKTKEGVREVF-EMATRAA 174

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

 Score = 82.0 bits (203), Expect = 7e-20
 Identities = 46/159 (28%), Positives = 74/159 (46%), Gaps = 15/159 (9%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT L++ + +G F +    T+   + T +   N   I+  +WDTAGQE Y  L P+ 
Sbjct: 13  GCGKTCLLMVYAQGSFPEEYVPTVFENYVTTLQVPNGKIIELALWDTAGQEDYDRLRPLS 72

Query: 62  YRGAAAAVVVYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEEKRK------ 114
           Y      ++ Y + +  S +    KW  E+     P   + LV  K DL + +       
Sbjct: 73  YPDVDVILICYSVDNPTSLDNVEDKWYPEV-NHFCPGTPIVLVGLKTDLRKDKNSVSKLR 131

Query: 115 ------VKNEEGELYAQE-NGLSFLETSAKSAHNVNELF 146
                 V  E+GE  A+    ++++E SAK   NV+E+F
Sbjct: 132 AQGLEPVTPEQGESVAKSIGAVAYIECSAKLMENVDEVF 170

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

 Score = 81.4 bits (201), Expect = 1e-19
 Identities = 50/163 (30%), Positives = 84/163 (51%), Gaps = 15/163 (9%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKTSL+  F  G+F +    T+   + T    ++   ++  +WDTAGQE Y  L P+ Y 
Sbjct: 13  GKTSLLYVFTLGEFPEEYHPTVFENYVTDC-RVDGKPVQLALWDTAGQEEYERLRPLSYS 71

Query: 64  GAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEK---------- 112
            A   ++ + I + DS E  + KW++E+ R+  PN+ + LV  K DL ++          
Sbjct: 72  KAHVILIGFAIDTPDSLENVRTKWIEEV-RRYCPNVPVILVGLKKDLRQEAVAKGNYATD 130

Query: 113 RKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIAKRLA 154
             V  ++ +L A+  G   ++E SA +   V+++F E A R A
Sbjct: 131 EFVPIQQAKLVARAIGAKKYMECSALTGEGVDDVF-EAATRAA 172

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|206701 cd04128, Spg1, Septum-promoting GTPase (Spg1)

 Score = 77.4 bits (191), Expect = 3e-18
 Identities = 42/151 (27%), Positives = 76/151 (50%), Gaps = 8/151 (5%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKTSL++++V+G+F +    T+G  F  + +S+    I F IWD  GQ  + ++ P+ 
Sbjct: 10  QIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLV 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL------EEKRKV 115
            + A A + ++D+T   +    K+W ++  R  N   I  LV  K DL      EE+ ++
Sbjct: 70  CKDAVAILFMFDLTRKSTLNSIKEWYRQ-ARGFNKTAIPILVGTKYDLFADLPPEEQEEI 128

Query: 116 KNEEGELYAQENGLSFLETSAKSAHNVNELF 146
             ++   YA+      +  S   + NV ++F
Sbjct: 129 -TKQARKYAKAMKAPLIFCSTSHSINVQKIF 158

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

 Score = 75.9 bits (187), Expect = 2e-17
 Identities = 51/156 (32%), Positives = 78/156 (50%), Gaps = 7/156 (4%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN--EVTIKF-DIWDTAGQERYHSLA 58
           G GK+SL   F  G + D      G   + + +S++  E T+   D W+   QE    L 
Sbjct: 10  GVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVVYDHWE---QEDGMWLE 66

Query: 59  PMYYRGAAAAVVVYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKN 117
               +   A V+VY +T   SFE+A +   +L+R +   ++ + LV NK DL   R+V  
Sbjct: 67  DSCMQVGDAYVIVYSVTDRSSFEKASELRIQLRRARQAEDIPIILVGNKSDLVRSREVSV 126

Query: 118 EEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +EG   A      F+ETSA   HNV+ELF  I +++
Sbjct: 127 QEGRACAVVFDCKFIETSAALQHNVDELFEGIVRQV 162

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|219856 pfam08477, Miro, Miro-like protein

 Score = 72.8 bits (179), Expect = 4e-17
 Identities = 30/108 (27%), Positives = 50/108 (46%), Gaps = 4/108 (3%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G+GK+SL+ + V G+F        G       L ++  T   +IWD  G+E       ++
Sbjct: 9   GSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREELKFEHIIF 68

Query: 62  YRGAAAAVVVYDITSMDSFERA---KKWVQELQRQGNPNLIMFLVANK 106
            + A A ++VYD+T  +S         W+  L R+    + + LV NK
Sbjct: 69  MKWADAILLVYDLTDRESLNEVSRLIAWLPNL-RKLGGKIPVILVGNK 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|133343 cd04143, Rhes_like, Ras homolog enriched in striatum (Rhes) and activator of G-protein signaling 1 (Dexras1/AGS1)

 Score = 74.8 bits (184), Expect = 8e-17
 Identities = 51/193 (26%), Positives = 91/193 (47%), Gaps = 20/193 (10%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT++V RF+ G+F +    TI   F  ++ S+     + DI DT+G   + ++  +   
Sbjct: 12  GKTAIVSRFLGGRFEEQYTPTI-EDFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSIL 70

Query: 64  GAAAAVVVYDITSMDSFE---------RAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK 114
                ++V+ + + +SFE            K   + + + N  + M +  NK D +  R+
Sbjct: 71  TGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPRE 130

Query: 115 VKNEEGELY-AQENGLSFLETSAKSAHNVNELFY---EIAKRLAEVNPSR------QTGM 164
           V+ +E E     +   ++ E SAK   N++E+F     +AK   E++PS       Q G 
Sbjct: 131 VQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRALFSLAKLPNEMSPSLHRKISVQYGD 190

Query: 165 KLHTESHGGGRRG 177
            LH +S GG R+ 
Sbjct: 191 ALHKKSRGGSRKR 203

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

 Score = 73.0 bits (179), Expect = 1e-16
 Identities = 40/129 (31%), Positives = 69/129 (53%), Gaps = 13/129 (10%)

Query: 30  FTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERA-KKWVQ 88
           F+  + ++  T+   +WDTAGQE Y+ L P+ YRGA   ++ + + S  S+E   KKW+ 
Sbjct: 38  FSANVVVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISKASYENVLKKWIP 97

Query: 89  ELQRQGNPNLIMFLVANKVDLEEKRK----------VKNEEG-ELYAQENGLSFLETSAK 137
           EL+    P + + LV  K+DL + ++          +   +G EL  Q    +++E S+K
Sbjct: 98  ELRHYA-PGVPIVLVGTKLDLRDDKQFFADHPGAVPITTAQGEELRKQIGAAAYIECSSK 156

Query: 138 SAHNVNELF 146
           +  NV  +F
Sbjct: 157 TQQNVKAVF 165

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

 Score = 71.3 bits (175), Expect = 6e-16
 Identities = 38/159 (23%), Positives = 76/159 (47%), Gaps = 20/159 (12%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GKTSL++ +       +    +  AF  F+ V+ ++   ++  + DTAGQ+ +  L P+ 
Sbjct: 12  GKTSLIVSYT---TNGYPTEYVPTAFDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLC 68

Query: 62  YRGAAAAVVVYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y      ++ + + +  SF+  ++KW+ E+ R+ NP   + LV  + DL           
Sbjct: 69  YPDTDVFLLCFSVVNPSSFQNISEKWIPEI-RKHNPKAPIILVGTQADLRTDVNVLIQLA 127

Query: 112 ---KRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELF 146
              ++ V     +  A++ G   ++E SA +  N+ E+F
Sbjct: 128 RYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVF 166

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

 Score = 69.3 bits (170), Expect = 3e-15
 Identities = 46/159 (28%), Positives = 68/159 (42%), Gaps = 24/159 (15%)

Query: 2   GTGKTSLVLRFVKGQFFD-----FQESTIGAAFFTQVLSLNE-VTIKFDIWDT--AGQER 53
           G GK+SL++  V  +F +       E TI A          E V     I DT    Q+R
Sbjct: 12  GVGKSSLIMSLVSEEFPENVPRVLPEITIPADVT------PERVPTT--IVDTSSRPQDR 63

Query: 54  YHSLAPMYYRGAAAAVVVYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEEK 112
            +  A +  R A    +VY +    + ER   KW+  + R+    + + LV NK DL + 
Sbjct: 64  ANLAAEI--RKANVICLVYSVDRPSTLERIRTKWLPLI-RRLGVKVPIILVGNKSDLRDG 120

Query: 113 RKVKNEEGELYAQENGLS----FLETSAKSAHNVNELFY 147
                 E E+    N        +E SAK+  NV+E+FY
Sbjct: 121 SSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFY 159

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

 Score = 67.8 bits (166), Expect = 1e-14
 Identities = 48/164 (29%), Positives = 86/164 (52%), Gaps = 22/164 (13%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GKT+L+  F K  F +    T+   F  +T    +++  I+  +WDT+G   Y ++ P+ 
Sbjct: 13  GKTALLQVFAKDSFPENYVPTV---FENYTASFEVDKQRIELSLWDTSGSPYYDNVRPLS 69

Query: 62  YRGAAAAVVVYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDLE---------- 110
           Y  + A ++ +DI+  ++ +   KKW  E++    PN  + LV  K DL           
Sbjct: 70  YPDSDAVLICFDISRPETLDSVLKKWKGEVREFC-PNTPVLLVGCKSDLRTDLSTLTELS 128

Query: 111 EKRK--VKNEEGELYAQENG-LSFLETSAKSAHN-VNELFYEIA 150
            KR+  V +E+G   A++ G  +++E SAK++ N V ++F E+A
Sbjct: 129 NKRQIPVSHEQGRNLAKQIGAAAYVECSAKTSENSVRDVF-EMA 171

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

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

 Score = 63.7 bits (155), Expect = 6e-13
 Identities = 46/164 (28%), Positives = 81/164 (49%), Gaps = 11/164 (6%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT+L+ RF+   F      T+     ++   +  V +  DI DT+G   + ++  + 
Sbjct: 9   GVGKTALIQRFLYDTFEPKHRRTV-EELHSKEYEVAGVKVTIDILDTSGSYSFPAMRKLS 67

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQE-LQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            +   A  +VY +   +SFE  K+  +E L+ + +  + + +V NK+D   +R+V+  + 
Sbjct: 68  IQNGDAFALVYSVDDPESFEEVKRLREEILEVKEDKFVPIVVVGNKIDSLAERQVEAADA 127

Query: 121 ELYAQ---ENGLSFLETSAKSAHNVNELFYEIAKRLAEVN-PSR 160
               +    NG  F+E SAK   NV E+F E+   L + N PS 
Sbjct: 128 LSTVELDWNNG--FVEASAKDNENVTEVFKEL---LQQANLPSW 166

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

 Score = 61.4 bits (150), Expect = 2e-12
 Identities = 33/118 (27%), Positives = 51/118 (43%), Gaps = 12/118 (10%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT+++ +  K         TIG      V ++    +KF +WD  GQ++   L   Y
Sbjct: 9   GAGKTTILYKL-KLGEVVTTIPTIG----FNVETVEYKNVKFTVWDVGGQDKIRPLWKHY 63

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQEL----QRQGNPNLIMFLVANKVDLEEKRKV 115
           Y      + V D +  +  E AK  + +L    + +G P LI+   ANK DL      
Sbjct: 64  YENTDGLIFVVDSSDRERIEEAKNELHKLLNEEELKGAPLLIL---ANKQDLPGALTE 118

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

 Score = 61.6 bits (149), Expect = 3e-12
 Identities = 46/173 (26%), Positives = 80/173 (46%), Gaps = 16/173 (9%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT L++ +    F      T+   +  Q  +++  T+  ++WDTAGQE Y  L  + Y 
Sbjct: 15  GKTCLLICYTTNAFPKEYIPTVFDNYSAQT-AVDGRTVSLNLWDTAGQEEYDRLRTLSYP 73

Query: 64  GAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDL----EEKRKVK-- 116
                ++ + I S  S+E  + KW  E+     PN+ + LV  K DL    +  +K+K  
Sbjct: 74  QTNVFIICFSIASPSSYENVRHKWHPEVCHHC-PNVPILLVGTKKDLRNDADTLKKLKEQ 132

Query: 117 ------NEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQT 162
                  ++G   A++   + +LE SA +   V E+F E  + +    P + T
Sbjct: 133 GQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVLNPTPIKDT 185

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|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 = 61.4 bits (149), Expect = 3e-12
 Identities = 43/159 (27%), Positives = 73/159 (45%), Gaps = 16/159 (10%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ Y 
Sbjct: 13  GKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLSYP 71

Query: 64  GAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVD----------LEEK 112
                ++ + + S  SFE  + KW  E++    PN  + LV  K+D          L+EK
Sbjct: 72  QTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEK 130

Query: 113 R--KVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYE 148
           +   +   +G   A+E   + +LE SA +   +  +F E
Sbjct: 131 KLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 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|206741 cd09914, RocCOR, Ras of complex proteins (Roc) C-terminal of Roc (COR) domain family

 Score = 60.8 bits (148), Expect = 4e-12
 Identities = 35/152 (23%), Positives = 64/152 (42%), Gaps = 4/152 (2%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFT-QVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           G GKTSL  + +  +F   + ST G      ++ +     I+ ++WD  GQE YH+    
Sbjct: 11  GVGKTSLCKQLIGEKFDGDESSTHGINVQDWKIPAPERKKIRLNVWDFGGQEIYHATHQF 70

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQ-RQGNPNLIMFLVANKVDLEEKRKVKNEE 119
           +    +  ++V+D+ + D   R   W+++++   G   +I  LV   +D      +  + 
Sbjct: 71  FLTSRSLYLLVFDLRTGDEVSRVPYWLRQIKAFGGVSPVI--LVGTHIDESCDEDILKKA 128

Query: 120 GELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
                          S K+   + EL   IAK
Sbjct: 129 LNKKFPAIINDIHFVSCKNGKGIAELKKAIAK 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|206724 cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl10) GTPases

 Score = 59.6 bits (145), Expect = 9e-12
 Identities = 49/154 (31%), Positives = 68/154 (44%), Gaps = 22/154 (14%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
            +GKT+LV     GQF +    T+G  F  + ++   VTIK  +WD  GQ R+ S+   Y
Sbjct: 9   NSGKTTLVNVIASGQFSEDTIPTVG--FNMRKVTKGNVTIK--VWDLGGQPRFRSMWERY 64

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQEL----QRQGNPNLIMFLVANKVDLEEKRKVKN 117
            RG  A V V D    +  E AK  + +L      +G P L+   + NK DL     V  
Sbjct: 65  CRGVNAIVYVVDAADREKLEVAKNELHDLLEKPSLEGIPLLV---LGNKNDLPGALSV-- 119

Query: 118 EEGELYAQENGLSFLE-------TSAKSAHNVNE 144
              EL  Q N  S  +        SAK   N++ 
Sbjct: 120 --DELIEQMNLKSITDREVSCYSISAKEKTNIDI 151

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

 Score = 58.1 bits (140), Expect = 5e-11
 Identities = 43/161 (26%), Positives = 78/161 (48%), Gaps = 21/161 (13%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GKT+L+  F K  F    E+ +   F  +T    ++   I+  +WDT+G   Y ++ P+ 
Sbjct: 17  GKTALLHVFAKDCF---PENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLS 73

Query: 62  YRGAAAAVVVYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDL----------- 109
           Y  + A ++ +DI+  ++ +   KKW  E+Q +  PN  M LV  K DL           
Sbjct: 74  YPDSDAVLICFDISRPETLDSVLKKWKGEIQ-EFCPNTKMLLVGCKSDLRTDVSTLVELS 132

Query: 110 -EEKRKVKNEEGELYAQE-NGLSFLETSAKSAHN-VNELFY 147
              +  V  ++G   A++    +++E SA  + N V ++F+
Sbjct: 133 NHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFH 173

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|206736 cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases

 Score = 58.5 bits (141), Expect = 7e-11
 Identities = 46/161 (28%), Positives = 87/161 (54%), Gaps = 21/161 (13%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GKT+L+  F K    ++ ES +   F  +T    +++  I+ ++WDT+G   Y ++ P+ 
Sbjct: 13  GKTALLHVFAKD---NYPESYVPTVFENYTASFEIDKHRIELNMWDTSGSSYYDNVRPLA 69

Query: 62  YRGAAAAVVVYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVD-------LEEKR 113
           Y  + A ++ +DI+  ++ +   KKW  E Q +  PN  + LV  K+D       L E  
Sbjct: 70  YPDSDAVLICFDISRPETLDSVLKKWQGETQ-EFCPNAKLVLVGCKLDMRTDLSTLRELS 128

Query: 114 K-----VKNEEGELYAQENG-LSFLETSAKSAHN-VNELFY 147
           K     V +E+G L A++ G ++++E S++ + N V ++F+
Sbjct: 129 KQRLIPVTHEQGSLLARQLGAVAYVECSSRMSENSVRDVFH 169

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|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases

 Score = 55.4 bits (133), Expect = 1e-09
 Identities = 47/187 (25%), Positives = 87/187 (46%), Gaps = 28/187 (14%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GKT+++    K  +    E+ +   F  +T  L   E  ++  +WDT+G   Y ++ P+ 
Sbjct: 25  GKTAMLQVLAKDCY---PETYVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLC 81

Query: 62  YRGAAAAVVVYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDL----------- 109
           Y  + A ++ +DI+  + F+ A KKW  E+     P+  + L+  K DL           
Sbjct: 82  YSDSDAVLLCFDISRPEIFDSALKKWRAEILDYC-PSTRILLIGCKTDLRTDLSTLMELS 140

Query: 110 -EEKRKVKNEEGELYAQENGL-SFLE----TSAKSAHNV----NELFYEIAKRLAEVNPS 159
            +++  +  E+G   A++ G  ++LE    TS KS H++    + L       LA+ +P 
Sbjct: 141 NQKQAPISYEQGCAMAKQLGAEAYLECSAFTSEKSIHSIFRTASLLCINKLSPLAKKSPV 200

Query: 160 RQTGMKL 166
           R    +L
Sbjct: 201 RSLSKRL 207

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

 Score = 53.7 bits (129), Expect = 2e-09
 Identities = 41/159 (25%), Positives = 70/159 (44%), Gaps = 16/159 (10%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT L++ +   +F      T+   +   V+ +        ++DTAGQE Y  L P+ Y 
Sbjct: 13  GKTCLLISYTTNKFPSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQEDYDRLRPLSYP 71

Query: 64  GAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDL------------E 110
                +V + + S  SFE  K KWV E+     P     LV  ++DL             
Sbjct: 72  QTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLRDDPSTIEKLAKN 130

Query: 111 EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
           +++ +  E GE  A++   + ++E SA +   +  +F E
Sbjct: 131 KQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVFDE 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|133342 cd04142, RRP22, Ras-related protein on chromosome 22 (RRP22) family

 Score = 52.9 bits (127), Expect = 6e-09
 Identities = 48/184 (26%), Positives = 76/184 (41%), Gaps = 16/184 (8%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT++V +F+  +F +    T     +   + L+       I D    +RY   A   
Sbjct: 10  GVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQE 69

Query: 62  Y--------RGAAAAVVVYDITSMDSFERAKKWVQ---ELQRQGNPNLIMFLVANKVDLE 110
           +        R + A ++VYDI S DSF   K   Q   E +  GN    + +V NK D +
Sbjct: 70  WMDPRFRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQ 129

Query: 111 EKRKV-KNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK----RLAEVNPSRQTGMK 165
             R   ++    L  +     +LE SAK   ++  LF E+      R    +P+ +    
Sbjct: 130 RHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILLLFKELLISATTRGRSTHPALRLQGA 189

Query: 166 LHTE 169
           LH E
Sbjct: 190 LHRE 193

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

 Score = 50.8 bits (121), Expect = 3e-08
 Identities = 40/161 (24%), Positives = 76/161 (47%), Gaps = 20/161 (12%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKF--DIWDTAGQERYHSLAPMY 61
           GKT L++ +    F    E  +   F    +S+     ++   ++DTAGQE Y  L P+ 
Sbjct: 12  GKTCLLMSYANDAF---PEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLS 68

Query: 62  YRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y      ++ + + +  SF+  K +WV EL ++  PN+   L+  ++DL +         
Sbjct: 69  YPMTDVFLICFSVVNPASFQNVKEEWVPEL-KEYAPNVPYLLIGTQIDLRDDPKTLARLN 127

Query: 112 ---KRKVKNEEGELYAQENGLS-FLETSAKSAHNVNELFYE 148
              ++ +  E+G+  A+E G   ++E SA +   +  +F E
Sbjct: 128 DMKEKPITVEQGQKLAKEIGACCYVECSALTQKGLKTVFDE 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|206719 cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7) GTPases

 Score = 50.2 bits (120), Expect = 4e-08
 Identities = 37/130 (28%), Positives = 56/130 (43%), Gaps = 13/130 (10%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSL---NEVTIKFDIWDTAGQERYHSLAPM 60
           GKT+++ R    +F +F  +     F T+ + +   N   + F  WD  GQE+   L   
Sbjct: 15  GKTTVLYRL---KFNEFVNTVPTKGFNTEKIKVSLGNAKGVTFHFWDVGGQEKLRPLWKS 71

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQR----QGNPNLIMFLVANKVDLEEKRKVK 116
           Y R     V V D   ++  E AK  + ++ +    QG P L+   +ANK DL     V 
Sbjct: 72  YTRCTDGIVFVVDSVDVERMEEAKTELHKITKFSENQGVPVLV---LANKQDLPNALPVS 128

Query: 117 NEEGELYAQE 126
             E  L   E
Sbjct: 129 EVEKLLALHE 138

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

 Score = 48.4 bits (115), Expect = 2e-07
 Identities = 31/117 (26%), Positives = 51/117 (43%), Gaps = 12/117 (10%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+++ +   G+      +TI    F  V ++    I F +WD  GQ++   L   Y
Sbjct: 23  AAGKTTILYKLKLGESV----TTIPTIGF-NVETVTYKNISFTVWDVGGQDKIRPLWRHY 77

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRK 114
           Y      + V D    D  + A+   +EL R  N     + ++ + ANK DL +  K
Sbjct: 78  YTNTQGLIFVVDSNDRDRIDEAR---EELHRMLNEDELRDAVILVFANKQDLPDAMK 131

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 = 48.0 bits (115), Expect = 2e-07
 Identities = 31/111 (27%), Positives = 49/111 (44%), Gaps = 6/111 (5%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+++ +   G+       TIG   F  V ++    +KF +WD  GQE    L   Y
Sbjct: 24  NAGKTTILYKLKLGEIVTTI-PTIG---FN-VETVTYKNVKFTVWDVGGQESLRPLWRNY 78

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQE-LQRQGNPNLIMFLVANKVDLEE 111
           +    A + V D    D  E AK+ +   L  +   +  + ++ANK DL  
Sbjct: 79  FPNTDAVIFVVDSADRDRIEEAKEELHALLNEEELADAPLLILANKQDLPG 129

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

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

 Score = 46.3 bits (110), Expect = 8e-07
 Identities = 33/110 (30%), Positives = 52/110 (47%), Gaps = 12/110 (10%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+++ +   GQ      +TI    F  V ++    +KF++WD  GQ++   L   YY 
Sbjct: 21  GKTTILYKLKLGQ----SVTTIPTVGF-NVETVTYKNVKFNVWDVGGQDKIRPLWRHYYT 75

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQRQGN----PNLIMFLVANKVDL 109
           G    + V D    D  + A+   QEL R  N     + ++ + ANK DL
Sbjct: 76  GTQGLIFVVDSADRDRIDEAR---QELHRIINDREMRDALLLVFANKQDL 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|206674 cd01887, IF2_eIF5B, Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family

 Score = 44.8 bits (107), Expect = 3e-06
 Identities = 50/183 (27%), Positives = 74/183 (40%), Gaps = 47/183 (25%)

Query: 1   MG---TGKTSL--VLR---FVKGQFFDFQES---T--IGAAFFTQVLSLNEVTIKFDIWD 47
           MG    GKT+L   +R      G      E+   T  IGA      + +  +T    I D
Sbjct: 6   MGHVDHGKTTLLDKIRKTNVAAG------EAGGITQHIGAYQVPIDVKIPGITF---I-D 55

Query: 48  TAGQERYHSLAPMYYRGAAA---AVVVYDITSMDSFE-RAKKWVQELQRQGNPNLIMFLV 103
           T G E + +   M  RGA+    A++V      D    +  + +   +    P     +V
Sbjct: 56  TPGHEAFTN---MRARGASVTDIAILVVAA--DDGVMPQTIEAINHAKAANVP----IIV 106

Query: 104 A-NKVDLEEKR-----KVKNEEGELYAQ--ENG--LSFLETSAKSAHNVNELFYEIAKRL 153
           A NK+D          +VKNE  EL     E G  +S +  SAK+   +++L   I   L
Sbjct: 107 AINKIDKPYGTEADPERVKNELSELGLVGEEWGGDVSIVPISAKTGEGIDDLLEAILL-L 165

Query: 154 AEV 156
           AEV
Sbjct: 166 AEV 168

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. Length = 169

>gnl|CDD|206685 cd01898, Obg, Obg GTPase

 Score = 42.4 bits (101), Expect = 2e-05
 Identities = 24/87 (27%), Positives = 39/87 (44%), Gaps = 5/87 (5%)

Query: 71  VYDITSMDS-FERAKKWVQELQRQGNPNLI---MFLVANKVDLEEKRKVKNEEGELYAQE 126
           V D++  D   E  +    EL+   NP L      +V NK+DL +  +   +  EL  + 
Sbjct: 85  VIDLSGEDDPVEDYETIRNELEAY-NPGLAEKPRIVVLNKIDLLDAEERFEKLKELLKEL 143

Query: 127 NGLSFLETSAKSAHNVNELFYEIAKRL 153
            G      SA +   ++EL  ++AK L
Sbjct: 144 KGKKVFPISALTGEGLDELLKKLAKLL 170

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. Length = 170

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

 Score = 43.3 bits (103), Expect = 2e-05
 Identities = 24/89 (26%), Positives = 44/89 (49%), Gaps = 10/89 (11%)

Query: 68  AVVVYDITSMDS-FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE 126
           A++V D       +E   + ++EL+ +  P ++   V NK+DL E+    + E E   ++
Sbjct: 89  ALLVVDAGVGPGEYE--LELIEELKERKIPYIV---VINKIDLGEE----SAELEKLEKK 139

Query: 127 NGLSFLETSAKSAHNVNELFYEIAKRLAE 155
            GL  +  SA +   ++EL   I + L E
Sbjct: 140 FGLPPIFVSALTGEGIDELKEAIIELLPE 168

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

 Score = 42.0 bits (99), Expect = 4e-05
 Identities = 32/112 (28%), Positives = 54/112 (48%), Gaps = 12/112 (10%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+++ +F+ G+       TIG    + V  +    I+F +WD  GQE   S    YY 
Sbjct: 27  GKTTILYQFLLGEVVHTS-PTIG----SNVEEIVYKNIRFLMWDIGGQESLRSSWNTYYT 81

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNL---IMFLVANKVDLEE 111
              A ++V D T  +     K   +EL +   + +L   ++ ++ANK DL+ 
Sbjct: 82  NTDAVILVIDSTDRERLPLTK---EELYKMLAHEDLRKAVLLVLANKQDLKG 130

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|206646 cd00880, Era_like, E

 Score = 41.5 bits (98), Expect = 4e-05
 Identities = 29/126 (23%), Positives = 45/126 (35%), Gaps = 21/126 (16%)

Query: 40  TIKFDIWDTAG-----------QERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQ 88
                + DT G            E    +A      A   ++V D       E AK  + 
Sbjct: 45  LGPVVLIDTPGLDEEGGLGRERVEEARQVA----DRADLVLLVVDSDLTPVEEEAK--LG 98

Query: 89  ELQRQGNPNLIMFLVANKVDL-EEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFY 147
            L+ +G P   + LV NK+DL  E  + +            L  +  SA     ++EL  
Sbjct: 99  LLRERGKP---VLLVLNKIDLVPESEEEELLRERKLELLPDLPVIAVSALPGEGIDELRK 155

Query: 148 EIAKRL 153
           +IA+ L
Sbjct: 156 KIAELL 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|206717 cd04150, Arf1_5_like, ADP-ribosylation factor-1 (Arf1) and ADP-ribosylation factor-5 (Arf5)

 Score = 40.9 bits (96), Expect = 6e-05
 Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 7/73 (9%)

Query: 41  IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNP---- 96
           I F +WD  GQ++   L   Y++     + V D    +    A+   +ELQR  N     
Sbjct: 44  ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERIGEAR---EELQRMLNEDELR 100

Query: 97  NLIMFLVANKVDL 109
           + ++ + ANK DL
Sbjct: 101 DAVLLVFANKQDL 113

The Arf1-Arf5-like 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 and other lower eukaryotes, lack Arf2. Human Arf3 shares 96% sequence identity with Arf1 and is believed to generally function interchangeably with Arf1. Human Arf4 in the activated (GTP-bound) state has been shown to interact with the cytoplasmic domain of epidermal growth factor receptor (EGFR) and mediate the EGF-dependent activation of phospholipase D2 (PLD2), leading to activation of the activator protein 1 (AP-1) transcription factor. Arf4 has also been shown to recognize the C-terminal sorting signal of rhodopsin and regulate its incorporation into specialized post-Golgi rhodopsin transport carriers (RTCs). There is some evidence that Arf5 functions at the early-Golgi and the trans-Golgi to affect Golgi-associated alpha-adaptin homology Arf-binding proteins (GGAs). Length = 159

>gnl|CDD|177661 PLN00023, PLN00023, GTP-binding protein; Provisional

 Score = 41.0 bits (96), Expect = 1e-04
 Identities = 33/146 (22%), Positives = 54/146 (36%), Gaps = 25/146 (17%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIG-------------AAFFTQVLSLNEVTIKFDIWDT 48
           G GK+SLV   VKG        TIG              +    +   +E     ++WD 
Sbjct: 31  GVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDV 90

Query: 49  AGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGN---------PNLI 99
           +G ERY     ++Y      + V+D++   +    +KW  E+   G          P  +
Sbjct: 91  SGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGL 150

Query: 100 ---MFLVANKVDLEEKRKVKNEEGEL 122
                ++ NK D+  K   +   G L
Sbjct: 151 PVPYIVIGNKADIAPKEGTRGSSGNL 176

Length = 334

>gnl|CDD|237048 PRK12299, obgE, GTPase CgtA; Reviewed

 Score = 40.8 bits (97), Expect = 1e-04
 Identities = 23/92 (25%), Positives = 40/92 (43%), Gaps = 4/92 (4%)

Query: 73  DITSMDSFERAKKWVQELQRQGNPNLI---MFLVANKVDLEEKRKVKNEEGELYAQENGL 129
           DI ++D  E  K    EL++  +P L      LV NK+DL ++ + + +   L     G 
Sbjct: 245 DIEAVDPVEDYKTIRNELEKY-SPELADKPRILVLNKIDLLDEEEEREKRAALELAALGG 303

Query: 130 SFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
                SA +   ++EL   + + L E     +
Sbjct: 304 PVFLISAVTGEGLDELLRALWELLEEARREEE 335

Length = 335

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

 Score = 40.3 bits (95), Expect = 2e-04
 Identities = 25/113 (22%), Positives = 49/113 (43%), Gaps = 18/113 (15%)

Query: 41  IKFDIWDTAGQERY-----HSLAPMYYRGAAAAVVVYDITSMD---SFERAKKWVQELQR 92
           +  ++WD  GQ+ +            +      + V+D+ S +         K ++ L  
Sbjct: 48  LTLNLWDCPGQDDFMENYLTRQKEHIFSNVGVLIYVFDVESREYEEDLATLVKIIEAL-Y 106

Query: 93  QGNPNLIMFLVANKVDL--EEKRK-VKNEEGELYAQE------NGLSFLETSA 136
           Q +PN  +F++ +K+DL  E++RK +  +  E   +E        L+F  TS 
Sbjct: 107 QYSPNAKVFVLIHKMDLLSEDERKEIFEDRKEEIIEEIEDFGIEDLTFFLTSI 159

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

 Score = 40.0 bits (93), Expect = 2e-04
 Identities = 29/110 (26%), Positives = 49/110 (44%), Gaps = 6/110 (5%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT+++ +  + +F      TIG      V ++    +KF IWD  G+ +   L   Y
Sbjct: 9   GAGKTTILFKLKQDEFMQ-PIPTIG----FNVETVEYKNLKFTIWDVGGKHKLRPLWKHY 63

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGN-PNLIMFLVANKVDLE 110
           Y    A V V D +  D    A   + +L  +    + ++ + ANK D+ 
Sbjct: 64  YLNTQAVVFVIDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVA 113

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|173423 PTZ00133, PTZ00133, ADP-ribosylation factor; Provisional

 Score = 38.7 bits (90), Expect = 5e-04
 Identities = 20/73 (27%), Positives = 35/73 (47%), Gaps = 7/73 (9%)

Query: 41  IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNP---- 96
           +KF +WD  GQ++   L   YY+     + V D    +    A+   +EL+R  +     
Sbjct: 61  LKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDRERIGDAR---EELERMLSEDELR 117

Query: 97  NLIMFLVANKVDL 109
           + ++ + ANK DL
Sbjct: 118 DAVLLVFANKQDL 130

Length = 182

>gnl|CDD|206725 cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)

 Score = 38.5 bits (90), Expect = 6e-04
 Identities = 30/120 (25%), Positives = 49/120 (40%), Gaps = 16/120 (13%)

Query: 35  SLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQR-- 92
            + +  + F  WD  GQE   SL   YY  +   + V D T  + F  +K   +++    
Sbjct: 47  EVGKARLMF--WDLGGQEELRSLWDKYYAESHGVIYVIDSTDRERFNESKSAFEKVINNE 104

Query: 93  --QGNPNLIMFLVANKVDLE------EKRKVKNEEGELYAQENGLSFLETSAKSAHNVNE 144
             +G P L++   ANK DL       E ++V ++   L  + +       SA     V E
Sbjct: 105 ALEGVPLLVL---ANKQDLPDALSVAEIKEVFDDCIALIGRRD-CLVQPVSALEGEGVEE 160

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. Length = 168

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

 Score = 38.2 bits (89), Expect = 6e-04
 Identities = 25/107 (23%), Positives = 50/107 (46%), Gaps = 5/107 (4%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GK++L+ +    +       T+G  F  ++L L +  +   +WD  GQE+  ++   Y  
Sbjct: 11  GKSTLLYKLKHAELVT-TIPTVG--FNVEMLQLEK-HLSLTVWDVGGQEKMRTVWKCYLE 66

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQE-LQRQGNPNLIMFLVANKVDL 109
                V V D +     + ++K ++  L+ +    + + L+ANK DL
Sbjct: 67  NTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDL 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|237046 PRK12297, obgE, GTPase CgtA; Reviewed

 Score = 38.9 bits (92), Expect = 7e-04
 Identities = 28/96 (29%), Positives = 45/96 (46%), Gaps = 13/96 (13%)

Query: 69  VVVY--DITSM---DSFERAKKWVQELQRQGNPNLI---MFLVANKVDLEEKRKVKNEEG 120
           V+V+  D++     D  E  +K  +EL +  NP L+     +VANK+DL E  +   E  
Sbjct: 239 VIVHVIDMSGSEGRDPIEDYEKINKEL-KLYNPRLLERPQIVVANKMDLPEAEENLEEFK 297

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV 156
           E    +        SA +   ++EL Y +A+ L E 
Sbjct: 298 EKLGPK----VFPISALTGQGLDELLYAVAELLEET 329

Length = 424

>gnl|CDD|237511 PRK13796, PRK13796, GTPase YqeH; Provisional

 Score = 38.7 bits (91), Expect = 7e-04
 Identities = 35/97 (36%), Positives = 44/97 (45%), Gaps = 24/97 (24%)

Query: 68  AVVVYDITSMDSFERAKKWVQELQR--QGNPNLIMFLVANKVDLEEK----RKVKN---E 118
           A+VV  +   D F+    W+  L R    NP L   LV NK DL  K     KVKN   +
Sbjct: 71  ALVVNVV---DIFDFNGSWIPGLHRFVGNNPVL---LVGNKADLLPKSVKKNKVKNWLRQ 124

Query: 119 EGELYAQENGLS----FLETSAKSAHNVNELFYEIAK 151
           E    A+E GL      L  SA+  H ++EL   I K
Sbjct: 125 E----AKELGLRPVDVVL-ISAQKGHGIDELLEAIEK 156

Length = 365

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

 Score = 38.3 bits (89), Expect = 7e-04
 Identities = 24/102 (23%), Positives = 40/102 (39%), Gaps = 9/102 (8%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSL-----NEVTIKFDIWDTAGQ----E 52
           G GK+SLV    K Q       T+G +   +  +       E T   ++WD  G     E
Sbjct: 10  GVGKSSLVHLLCKNQVLGNPSWTVGCSVDVRHHTYGEGTPEEKTFYVELWDVGGSVGSAE 69

Query: 53  RYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQG 94
              S   ++Y      + V+D+T+  S +   +W  E   + 
Sbjct: 70  SVKSTRAVFYNQINGIIFVHDLTNKKSSQNLYRWSLEALNRD 111

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|234624 PRK00089, era, GTPase Era; Reviewed

 Score = 38.1 bits (90), Expect = 0.001
 Identities = 23/90 (25%), Positives = 43/90 (47%), Gaps = 7/90 (7%)

Query: 69  VVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG 128
           +V++ + + +      +++ E  ++    +I  LV NK+DL + ++      E  ++   
Sbjct: 87  LVLFVVDADEKIGPGDEFILEKLKKVKTPVI--LVLNKIDLVKDKEELLPLLEELSEL-- 142

Query: 129 LSFLET---SAKSAHNVNELFYEIAKRLAE 155
           + F E    SA    NV+EL   IAK L E
Sbjct: 143 MDFAEIVPISALKGDNVDELLDVIAKYLPE 172

Length = 292

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

 Score = 37.6 bits (87), Expect = 0.001
 Identities = 33/131 (25%), Positives = 56/131 (42%), Gaps = 23/131 (17%)

Query: 36  LNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKK-WVQELQRQG 94
           ++ V++   +WDT G   +       Y  +   ++ + I S +S    K  W  E+ R  
Sbjct: 61  VDGVSVSLRLWDTFGD--HDKDRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEI-RHF 117

Query: 95  NPNLIMFLVANKVDL-----EE--------KRKVKN------EEGELYAQENGLSFLETS 135
            P + + LV  K+DL     +E         R +KN      E G   A+E G+ + ETS
Sbjct: 118 CPRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKELGIPYYETS 177

Query: 136 AKSAHNVNELF 146
             +   V ++F
Sbjct: 178 VVTQFGVKDVF 188

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|133362 cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp2-like GTPase

 Score = 37.0 bits (86), Expect = 0.002
 Identities = 31/127 (24%), Positives = 51/127 (40%), Gaps = 9/127 (7%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKTS +L  +  +     ES +    F  V    +     ++ +  G +        Y
Sbjct: 9   GAGKTS-LLHSLSSE--RSLESVVPTTGFNSVAIPTQ-DAIMELLEIGGSQNLRKYWKRY 64

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR--QGNPNLIMFLVANKVDLEEKRKVKNEE 119
             G+   + V D    +    A+   QEL +  Q  P+L + ++ANK DL   R V+   
Sbjct: 65  LSGSQGLIFVVDSADSERLPLAR---QELHQLLQHPPDLPLVVLANKQDLPAARSVQEIH 121

Query: 120 GELYAQE 126
            EL  + 
Sbjct: 122 KELELEP 128

Arl9/Arfrp2-like subfamily. 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. Length = 164

>gnl|CDD|206718 cd04151, Arl1, ADP ribosylation factor 1 (Arf1)

 Score = 35.8 bits (83), Expect = 0.004
 Identities = 32/116 (27%), Positives = 50/116 (43%), Gaps = 18/116 (15%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM- 60
           G GKT+++ R   G+      +TI    F  V ++    +KF +WD  GQ    S+ P  
Sbjct: 9   GAGKTTILYRLQVGEVV----TTIPTIGF-NVETVTYKNLKFQVWDLGGQT---SIRPYW 60

Query: 61  --YYRGAAAAVVVYDITSMDSFERAKK----WVQELQRQGNPNLIMFLVANKVDLE 110
             YY    A + V D T  D    +K      ++E + +    L+    ANK D+ 
Sbjct: 61  RCYYSNTDAIIYVVDSTDRDRLGISKSELHAMLEEEELKDAVLLVF---ANKQDMP 113

Arl1 subfamily. 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. Length = 158

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	181
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	100.0
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	100.0
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
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	100.0
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	100.0
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	100.0
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	100.0
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	100.0
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	100.0
KOG0394	210	consensus Ras-related GTPase [General function pre	100.0
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	100.0
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	100.0
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	100.0
PLN03110	216	Rab GTPase; Provisional	100.0
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	100.0
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	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
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	100.0
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	100.0
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	100.0
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	100.0
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	100.0
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	100.0
PTZ00369	189	Ras-like protein; Provisional	100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	100.0
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	100.0
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	100.0
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	100.0
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	100.0
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	100.0
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	100.0
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	100.0
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	100.0
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	100.0
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	100.0
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	100.0
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	100.0
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	100.0
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	100.0
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	100.0
PLN03118	211	Rab family protein; Provisional	100.0
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	100.0
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	100.0
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	100.0
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	100.0
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	100.0
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	100.0
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	100.0
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	100.0
PLN03108	210	Rab family protein; Provisional	100.0
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	100.0
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	100.0
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	100.0
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	100.0
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	100.0
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	100.0
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	100.0
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	100.0
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	100.0
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	100.0
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	100.0
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	100.0
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	100.0
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	100.0
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	100.0
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	100.0
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	100.0
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	100.0
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	100.0
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	100.0
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	100.0
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	100.0
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	100.0
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	100.0
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	100.0
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	100.0
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	100.0
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	100.0
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.98
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.98
PTZ00099	176	rab6; Provisional	99.98
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.97
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.97
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.97
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.97
KOG0395	196	consensus Ras-related GTPase [General function pre	99.97
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.97
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.97
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.97
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.97
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.97
PLN00223	181	ADP-ribosylation factor; Provisional	99.97
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.97
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.97
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.97
PTZ00133	182	ADP-ribosylation factor; Provisional	99.97
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.97
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.97
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.96
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.96
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.96
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.96
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.96
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.96
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.96
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.96
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.96
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.96
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.95
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.95
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.95
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.95
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.95
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.95
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.95
PLN00023	334	GTP-binding protein; Provisional	99.95
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.95
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.94
PRK12299	335	obgE GTPase CgtA; Reviewed	99.94
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.93
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.93
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.93
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.93
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.93
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.93
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.93
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.93
COG1100	219	GTPase SAR1 and related small G proteins [General	99.92
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.92
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.92
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.92
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.92
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.91
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.91
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.91
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.91
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.9
PRK04213	201	GTP-binding protein; Provisional	99.9
PRK15494	339	era GTPase Era; Provisional	99.9
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.89
PRK12297	424	obgE GTPase CgtA; Reviewed	99.89
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.89
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.89
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.89
cd00881	189	GTP_translation_factor GTP translation factor fami	99.89
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.89
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.88
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.88
KOG1673	205	consensus Ras GTPases [General function prediction	99.88
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.88
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.88
PRK03003	472	GTP-binding protein Der; Reviewed	99.88
PRK11058	426	GTPase HflX; Provisional	99.88
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.88
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.88
PRK12296	500	obgE GTPase CgtA; Reviewed	99.88
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.88
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.87
PRK03003	472	GTP-binding protein Der; Reviewed	99.87
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.87
PRK00089	292	era GTPase Era; Reviewed	99.87
PRK12298	390	obgE GTPase CgtA; Reviewed	99.87
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.87
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.87
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.87
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.86
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.86
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.85
CHL00189	742	infB translation initiation factor 2; Provisional	99.85
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.85
PRK05306	787	infB translation initiation factor IF-2; Validated	99.85
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.85
COG1159	298	Era GTPase [General function prediction only]	99.84
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.84
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.84
PRK05433	600	GTP-binding protein LepA; Provisional	99.84
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.84
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.84
PRK00093	435	GTP-binding protein Der; Reviewed	99.83
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.83
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.83
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.83
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.82
PRK00093	435	GTP-binding protein Der; Reviewed	99.82
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.82
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.81
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.81
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.81
PRK12317	425	elongation factor 1-alpha; Reviewed	99.8
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.8
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.8
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.79
PRK04004	586	translation initiation factor IF-2; Validated	99.79
PRK10218	607	GTP-binding protein; Provisional	99.79
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.78
COG1160	444	Predicted GTPases [General function prediction onl	99.78
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.78
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.77
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.77
COG2229	187	Predicted GTPase [General function prediction only	99.77
COG0486	454	ThdF Predicted GTPase [General function prediction	99.76
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.76
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.75
COG1160	444	Predicted GTPases [General function prediction onl	99.75
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.74
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.74
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.73
COG2262	411	HflX GTPases [General function prediction only]	99.73
COG0218	200	Predicted GTPase [General function prediction only	99.72
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.72
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.72
PRK12736	394	elongation factor Tu; Reviewed	99.7
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.7
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.7
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.69
PRK12735	396	elongation factor Tu; Reviewed	99.69
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.69
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.68
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.67
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.67
COG1084	346	Predicted GTPase [General function prediction only	99.67
CHL00071	409	tufA elongation factor Tu	99.67
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.66
PRK14845	1049	translation initiation factor IF-2; Provisional	99.66
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.66
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.65
COG0536	369	Obg Predicted GTPase [General function prediction	99.65
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.65
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.64
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.64
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.64
PLN00043	447	elongation factor 1-alpha; Provisional	99.64
PRK13351	687	elongation factor G; Reviewed	99.64
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.63
KOG1145	683	consensus Mitochondrial translation initiation fac	99.63
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.62
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.62
PLN03126	478	Elongation factor Tu; Provisional	99.62
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.61
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.61
PRK00049	396	elongation factor Tu; Reviewed	99.61
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.6
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.6
PRK12740	668	elongation factor G; Reviewed	99.6
PTZ00141	446	elongation factor 1- alpha; Provisional	99.57
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.57
PLN03127	447	Elongation factor Tu; Provisional	99.56
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.56
PRK12739	691	elongation factor G; Reviewed	99.55
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.53
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.52
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.52
COG1163	365	DRG Predicted GTPase [General function prediction	99.51
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.48
PRK00007	693	elongation factor G; Reviewed	99.48
PRK09602	396	translation-associated GTPase; Reviewed	99.48
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.47
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.45
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	99.44
KOG0090	238	consensus Signal recognition particle receptor, be	99.44
COG3596	296	Predicted GTPase [General function prediction only	99.42
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.41
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.4
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.4
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.39
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.38
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.38
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.38
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.35
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.35
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.34
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.34
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.27
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	99.27
PTZ00258	390	GTP-binding protein; Provisional	99.25
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	99.23
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.23
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	99.23
PRK07560	731	elongation factor EF-2; Reviewed	99.2
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.19
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.19
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.19
PRK09866	741	hypothetical protein; Provisional	99.18
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.18
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.18
KOG0461	522	consensus Selenocysteine-specific elongation facto	99.18
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	99.17
PTZ00416	836	elongation factor 2; Provisional	99.16
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.16
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.14
PRK12289	352	GTPase RsgA; Reviewed	99.13
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.11
PRK09601	364	GTP-binding protein YchF; Reviewed	99.11
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	99.1
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.1
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.09
PRK00098	298	GTPase RsgA; Reviewed	99.08
KOG0082	354	consensus G-protein alpha subunit (small G protein	99.08
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.07
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.06
KOG3886	295	consensus GTP-binding protein [Signal transduction	99.04
PRK13768	253	GTPase; Provisional	99.04
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	99.04
PRK12288	347	GTPase RsgA; Reviewed	99.03
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	99.03
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	99.0
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	98.99
KOG0410	410	consensus Predicted GTP binding protein [General f	98.96
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.95
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	98.94
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	98.94
COG0050	394	TufB GTPases - translation elongation factors [Tra	98.93
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.91
COG0012	372	Predicted GTPase, probable translation factor [Tra	98.85
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.85
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	98.83
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	98.82
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.79
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.78
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.78
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.69
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	98.68
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	98.68
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.68
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.67
KOG3887	347	consensus Predicted small GTPase involved in nucle	98.66
KOG0460	449	consensus Mitochondrial translation elongation fac	98.64
KOG0465	721	consensus Mitochondrial elongation factor [Transla	98.64
KOG0464	753	consensus Elongation factor G [Translation, riboso	98.63
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	98.63
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	98.61
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	98.61
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	98.61
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.54
KOG2486	320	consensus Predicted GTPase [General function predi	98.53
PRK01889	356	GTPase RsgA; Reviewed	98.52
PRK13796	365	GTPase YqeH; Provisional	98.51
KOG4273	418	consensus Uncharacterized conserved protein [Funct	98.47
KOG0467	887	consensus Translation elongation factor 2/ribosome	98.46
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	98.42
KOG0099	379	consensus G protein subunit Galphas, small G prote	98.34
COG1161	322	Predicted GTPases [General function prediction onl	98.26
COG5258	527	GTPBP1 GTPase [General function prediction only]	98.23
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.19
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.19
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	98.15
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	98.15
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.14
COG1162	301	Predicted GTPases [General function prediction onl	98.13
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.06
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.06
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	98.06
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.06
KOG1143	591	consensus Predicted translation elongation factor	98.05
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	98.02
COG0523	323	Putative GTPases (G3E family) [General function pr	98.0
PRK13796	365	GTPase YqeH; Provisional	97.99
cd03112	158	CobW_like The function of this protein family is u	97.96
PRK12288	347	GTPase RsgA; Reviewed	97.94
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.92
COG1162	301	Predicted GTPases [General function prediction onl	97.92
PRK12289	352	GTPase RsgA; Reviewed	97.91
PRK10416	318	signal recognition particle-docking protein FtsY;	97.91
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	97.89
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	97.89
cd03111	106	CpaE_like This protein family consists of proteins	97.86
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	97.84
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.81
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.79
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	97.79
PRK11537	318	putative GTP-binding protein YjiA; Provisional	97.79
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.79
PRK14974	336	cell division protein FtsY; Provisional	97.79
KOG0466	466	consensus Translation initiation factor 2, gamma s	97.72
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.62
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	97.61
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	97.59
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	97.59
cd03110	179	Fer4_NifH_child This protein family's function is	97.57
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	97.52
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.5
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	97.49
PRK00098	298	GTPase RsgA; Reviewed	97.48
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	97.48
cd02036	179	MinD Bacterial cell division requires the formatio	97.44
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.42
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.35
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	97.32
COG3523	1188	IcmF Type VI protein secretion system component Va	97.29
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.24
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.23
COG1161	322	Predicted GTPases [General function prediction onl	97.15
PRK13695	174	putative NTPase; Provisional	97.12
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	97.11
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	97.07
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	97.02
PRK10646	153	ADP-binding protein; Provisional	96.84
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	96.81
KOG2484	435	consensus GTPase [General function prediction only	96.81
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.8
COG0802	149	Predicted ATPase or kinase [General function predi	96.76
PRK10867	433	signal recognition particle protein; Provisional	96.69
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	96.66
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.64
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.61
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.51
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.48
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.48
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.46
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.44
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	96.43
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	96.43
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	96.37
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.36
KOG3929	363	consensus Uncharacterized conserved protein [Funct	96.35
PHA02518	211	ParA-like protein; Provisional	96.29
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.29
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.16
PF13555	62	AAA_29: P-loop containing region of AAA domain	96.08
KOG2484	435	consensus GTPase [General function prediction only	96.05
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.03
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.0
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	95.93
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	95.89
KOG0780	483	consensus Signal recognition particle, subunit Srp	95.81
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.63
COG3911	183	Predicted ATPase [General function prediction only	95.59
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	95.57
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.54
PRK05416	288	glmZ(sRNA)-inactivating NTPase; Provisional	95.48
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	95.48
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	95.47
PRK14737	186	gmk guanylate kinase; Provisional	95.29
KOG2423	572	consensus Nucleolar GTPase [General function predi	95.23
PRK01889	356	GTPase RsgA; Reviewed	95.11
COG1149	284	MinD superfamily P-loop ATPase containing an inser	95.08
KOG2423	572	consensus Nucleolar GTPase [General function predi	95.06
PF00005	137	ABC_tran: ABC transporter This structure is on hol	94.97
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	94.91
PF14331	266	ImcF-related_N: ImcF-related N-terminal domain	94.9
PRK08233	182	hypothetical protein; Provisional	94.9
PRK04195	482	replication factor C large subunit; Provisional	94.84
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	94.83
PRK14738	206	gmk guanylate kinase; Provisional	94.76
PRK13833	323	conjugal transfer protein TrbB; Provisional	94.75
PRK07261	171	topology modulation protein; Provisional	94.7
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	94.63
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	94.62
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	94.58
smart00382	148	AAA ATPases associated with a variety of cellular	94.56
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	94.56
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	94.54
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	94.52
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	94.52
TIGR00235	207	udk uridine kinase. Model contains a number of lon	94.49
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	94.48
PF05879	742	RHD3: Root hair defective 3 GTP-binding protein (R	94.47
PRK08118	167	topology modulation protein; Reviewed	94.45
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	94.37
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	94.37
PTZ00293	211	thymidine kinase; Provisional	94.33
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	94.32
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	94.28
KOG1533	290	consensus Predicted GTPase [General function predi	94.28
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	94.23
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	94.22
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	94.21
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	94.21
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	94.17
PRK00411	394	cdc6 cell division control protein 6; Reviewed	94.12
PF00004	132	AAA: ATPase family associated with various cellula	94.11
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	94.11
PRK13851	344	type IV secretion system protein VirB11; Provision	94.1
PRK05480	209	uridine/cytidine kinase; Provisional	94.08
PRK11545	163	gntK gluconate kinase 1; Provisional	94.06
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	94.05
PRK13505	557	formate--tetrahydrofolate ligase; Provisional	94.03
COG4962	355	CpaF Flp pilus assembly protein, ATPase CpaF [Intr	93.98
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	93.96
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	93.96
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	93.95
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	93.94
PTZ00301	210	uridine kinase; Provisional	93.93
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	93.9
TIGR03371	246	cellulose_yhjQ cellulose synthase operon protein Y	93.9
PRK04040	188	adenylate kinase; Provisional	93.9
KOG1534	273	consensus Putative transcription factor FET5 [Tran	93.9
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	93.87
COG4619	223	ABC-type uncharacterized transport system, ATPase	93.87

>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=2.1e-43  Score=234.92  Aligned_cols=161  Identities=45%  Similarity=0.728  Sum_probs=155.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||+|+.||.++.|.+.+..|+|+++..+.+.+++..++++||||+|+++|+++...|+++|+++|+|||+++.+||
T Consensus        18 s~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~ahGii~vyDiT~~~SF   97 (205)
T KOG0084|consen   18 SGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIFVYDITKQESF   97 (205)
T ss_pred             CCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCCCeEEEEEEcccHHHh
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCe-EEEEecCCCCCHHHHHHHHHHHHHhhCCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLS-FLETSAKSAHNVNELFYEIAKRLAEVNPS  159 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~  159 (181)
                      ..+..|+.++..+...++|.++||||+|+.+.+.++.++++.|+..++++ ++++||+++.++++.|..|...+.++++.
T Consensus        98 ~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe~~F~~la~~lk~~~~~  177 (205)
T KOG0084|consen   98 NNVKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDSTNVEDAFLTLAKELKQRKGL  177 (205)
T ss_pred             hhHHHHHHHhhhhccCCCCeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCccCHHHHHHHHHHHHHHhccc
Confidence            99999999999998889999999999999999999999999999999999 99999999999999999999999998765


Q ss_pred             Cc
Q 030225          160 RQ  161 (181)
Q Consensus       160 ~~  161 (181)
                      ..
T Consensus       178 ~~  179 (205)
T KOG0084|consen  178 HV  179 (205)
T ss_pred             CC
Confidence            33

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

Probab=100.00  E-value=1.5e-42  Score=229.98  Aligned_cols=180  Identities=57%  Similarity=0.946  Sum_probs=163.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+-|+..+.|.+...+|+|.-+....+.+++..++|.||||+|+++|+++.+.|+++++++|+|||+++.+||
T Consensus        14 ~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAivvYDit~~~SF   93 (200)
T KOG0092|consen   14 SGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAIVVYDITDEESF   93 (200)
T ss_pred             CCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEEEEEecccHHHH
Confidence            58999999999999999998899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCCCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSR  160 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~~  160 (181)
                      ..++.|++.+.+...++..+.++|||+||.+.+++..+++..++...++.++++||+++.|++++|..|.+.+..+.+..
T Consensus        94 ~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSAKTg~Nv~~if~~Ia~~lp~~~~~~  173 (200)
T KOG0092|consen   94 EKAKNWVKELQRQASPNIVIALVGNKADLLERREVEFEEAQAYAESQGLLFFETSAKTGENVNEIFQAIAEKLPCSDPQE  173 (200)
T ss_pred             HHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEecccccCHHHHHHHHHHhccCccccc
Confidence            99999999999988788888889999999999999999999999999999999999999999999999999999887765


Q ss_pred             cc-------ccccccccCCCCCCCCCCC
Q 030225          161 QT-------GMKLHTESHGGGRRGFCCS  181 (181)
Q Consensus       161 ~~-------~~~~~~~~~~~~~~~~cc~  181 (181)
                      ..       +....+.+ .+...++||+
T Consensus       174 ~~~~~~~~~g~~l~~~~-~~~~~~~~C~  200 (200)
T KOG0092|consen  174 RQGLPNRRQGVDLNSNQ-EPARPSGCCA  200 (200)
T ss_pred             cccccccccceecccCC-CCcCcCCcCC
Confidence            42       23333332 4445558986

>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=3e-40  Score=222.76  Aligned_cols=161  Identities=42%  Similarity=0.724  Sum_probs=155.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||+|+.+|..+.+...+..|+|+++....+..++..+.+++|||+|+++|+.+...|++.|+++++|||+++..||
T Consensus        21 s~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~gi~LvyDitne~Sf  100 (207)
T KOG0078|consen   21 SGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDITNEKSF  100 (207)
T ss_pred             CCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcCeeEEEEEccchHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCCCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSR  160 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~~  160 (181)
                      +.+..|+..+.++....+|.++||||+|+...++++.+.+++++.++|+.++|+||++|.||.+.|-.|+..+..+....
T Consensus       101 eni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~NI~eaF~~La~~i~~k~~~~  180 (207)
T KOG0078|consen  101 ENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNFNIEEAFLSLARDILQKLEDA  180 (207)
T ss_pred             HHHHHHHHHHHhhCCCCCcEEEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCCCHHHHHHHHHHHHHhhcchh
Confidence            99999999999998889999999999999999999999999999999999999999999999999999999999876654


Q ss_pred             c
Q 030225          161 Q  161 (181)
Q Consensus       161 ~  161 (181)
                      .
T Consensus       181 ~  181 (207)
T KOG0078|consen  181 E  181 (207)
T ss_pred             h
Confidence            3

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

Probab=100.00  E-value=3.2e-40  Score=219.10  Aligned_cols=158  Identities=44%  Similarity=0.759  Sum_probs=150.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      .+||||||++|++.+.+...|++|+|+++.+..+.+.+..+++++|||+|+++|+.+.+.|++++.++|+|||++|..||
T Consensus        31 qsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~vaviVyDit~~~Sf  110 (221)
T KOG0094|consen   31 QSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVIVYDITDRNSF  110 (221)
T ss_pred             CccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEEEEEEeccccchH
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCC-CceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGNP-NLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~-~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +....|++.+...... ++-+++||||.||.+.+++..+++...+++++..|.++||+.|+||+.+|..|...+.+...
T Consensus       111 e~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g~NVk~lFrrIaa~l~~~~~  189 (221)
T KOG0094|consen  111 ENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAGENVKQLFRRIAAALPGMEV  189 (221)
T ss_pred             HHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCCCCHHHHHHHHHHhccCccc
Confidence            9999999999887665 57888999999999999999999999999999999999999999999999999888877633

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=1e-38  Score=222.37  Aligned_cols=158  Identities=37%  Similarity=0.692  Sum_probs=146.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+...+.+|++.++....+.+++..+.+.+||++|++.|..++..+++++|++|+|||++++++|
T Consensus         9 ~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVfDvtd~~Sf   88 (202)
T cd04120           9 RGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETF   88 (202)
T ss_pred             CCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEEECcCHHHH
Confidence            58999999999999999999999999999888889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHc-CCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQEN-GLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+..|+..+......+.|+++|+||+|+.+.+++...++..+++.. ++.++++||++|.||+++|++|++.+....+
T Consensus        89 ~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F~~l~~~~~~~~~  167 (202)
T cd04120          89 DDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKMP  167 (202)
T ss_pred             HHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHHhCc
Confidence            99999999887765578999999999999878888888888898875 7899999999999999999999998877543

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

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

Probab=100.00  E-value=1.3e-38  Score=205.21  Aligned_cols=158  Identities=42%  Similarity=0.744  Sum_probs=150.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+.++..+.+.+....|+|+++....+.+++..+++-||||+|+++|+.+.+.|++.+-++|+|||++.+++|
T Consensus        20 SGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaqGiIlVYDVT~Rdtf   99 (209)
T KOG0080|consen   20 SGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQGIILVYDVTSRDTF   99 (209)
T ss_pred             CCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCceeEEEEEccchhhH
Confidence            69999999999999999999988899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC-CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      ..+..|++++..++. ++...++|+||+|....+.++.+++..|++++++-++++||++.+|++..|+.|+.++.+...
T Consensus       100 ~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~h~~LFiE~SAkt~~~V~~~FeelveKIi~tp~  178 (209)
T KOG0080|consen  100 VKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARKHRCLFIECSAKTRENVQCCFEELVEKIIETPS  178 (209)
T ss_pred             HhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHHhhCcEEEEcchhhhccHHHHHHHHHHHHhcCcc
Confidence            999999999988754 677789999999998889999999999999999999999999999999999999999998755

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

Probab=100.00  E-value=6.5e-39  Score=203.88  Aligned_cols=156  Identities=38%  Similarity=0.668  Sum_probs=149.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||+|||+|+.++..+.|...|..|+|.++..+++.++|..+++.|||++|++.|+.+...|++..+++++|||+++.+||
T Consensus        17 sgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~vVYDVTn~ESF   96 (198)
T KOG0079|consen   17 SGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESF   96 (198)
T ss_pred             CcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEEEEEECcchhhh
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      .+..+|++.+...+ +..|-++||||.|..+.+.+..+++++|+...|+.+|++||++.+|++..|.-|.+++.+..
T Consensus        97 ~Nv~rWLeei~~nc-dsv~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~mF~cit~qvl~~k  172 (198)
T KOG0079|consen   97 NNVKRWLEEIRNNC-DSVPKVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAMFHCITKQVLQAK  172 (198)
T ss_pred             HhHHHHHHHHHhcC-ccccceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHHHHHHHHHHHHHH
Confidence            99999999998886 68999999999999998999999999999999999999999999999999999998877654

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

Probab=100.00  E-value=8.4e-39  Score=210.81  Aligned_cols=157  Identities=44%  Similarity=0.776  Sum_probs=151.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      .|||||+|+.+++...|.+.+..|+|+++..+.+.+++..+++++|||+|++.|+.....|++++.++|+|||+++.++|
T Consensus        15 ~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~GalLVydit~r~sF   94 (216)
T KOG0098|consen   15 TGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGALLVYDITRRESF   94 (216)
T ss_pred             CCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcceEEEEEccchhhH
Confidence            38999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ..+..|+..++.+..++..+++++||+||...+++..+++++|++++++.++++||++++|+++.|......+.+.-
T Consensus        95 ~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VEEaF~nta~~Iy~~~  171 (216)
T KOG0098|consen   95 NHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSAKTAENVEEAFINTAKEIYRKI  171 (216)
T ss_pred             HHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhhhhhhhHHHHHHHHHHHHHHHH
Confidence            99999999999998899999999999999999999999999999999999999999999999999999998888753

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=1.2e-37  Score=215.07  Aligned_cols=157  Identities=30%  Similarity=0.545  Sum_probs=146.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+...+.++++.++....+.+++..+++.+||++|++.|..++..+++++|++|+|||++++.+|
T Consensus        15 ~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~illVfD~t~~~Sf   94 (189)
T cd04121          15 SDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSF   94 (189)
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHH
Confidence            58999999999999999888888999888888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+..|+..+.... ++.|++|||||.|+...+.+..++++.+++.++++++++||++|.||+++|++|++.+..++.
T Consensus        95 ~~~~~w~~~i~~~~-~~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~F~~l~~~i~~~~~  171 (189)
T cd04121          95 DGIDRWIKEIDEHA-PGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTELARIVLMRHG  171 (189)
T ss_pred             HHHHHHHHHHHHhC-CCCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHhcC
Confidence            99999999997764 689999999999998878888999999999999999999999999999999999998887655

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=100.00  E-value=1.7e-37  Score=217.17  Aligned_cols=179  Identities=32%  Similarity=0.619  Sum_probs=154.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEEC-CeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN-EVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      ||||||||+++|.++.+...+.+|++.++....+.++ +..+.+.+||++|++.+..++..+++++|++|+|||++++++
T Consensus         9 ~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D~t~~~s   88 (201)
T cd04107           9 LGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFDVTRPST   88 (201)
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEECCCHHH
Confidence            6999999999999999999899999998888888887 788999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhC----CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           80 FERAKKWVQELQRQG----NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~----~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      |+.+..|+..+....    ..+.|+++++||+|+.+.+.+..+++..+++..+ ..++++||++|+|++++|++|++.+.
T Consensus        89 ~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~  168 (201)
T cd04107          89 FEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGINIEEAMRFLVKNIL  168 (201)
T ss_pred             HHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            999999998886532    2578999999999997667788888999999998 68999999999999999999999887


Q ss_pred             hhCCCCc--------cccccccccCCCCCCCCCC
Q 030225          155 EVNPSRQ--------TGMKLHTESHGGGRRGFCC  180 (181)
Q Consensus       155 ~~~~~~~--------~~~~~~~~~~~~~~~~~cc  180 (181)
                      +.....+        +.+.....++.++.+ +||
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~  201 (201)
T cd04107         169 ANDKNLQQAETPEDGSVIDLKQTTTKKKSK-GCC  201 (201)
T ss_pred             HhchhhHhhcCCCcccccccccceeccccC-CCC
Confidence            7643211        344455555555555 788

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.

>cd04144 Ras2 Ras2 subfamily

Probab=100.00  E-value=3.4e-37  Score=213.90  Aligned_cols=178  Identities=29%  Similarity=0.478  Sum_probs=151.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+...+.++++..+. .....++..+.+.+||++|++.|..++..+++++|++|+|||++++++|
T Consensus         8 ~~vGKTsli~~l~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~   86 (190)
T cd04144           8 GGVGKTALTIQLCLNHFVETYDPTIEDSYR-KQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSITSRSTF   86 (190)
T ss_pred             CCCCHHHHHHHHHhCCCCccCCCchHhhEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEECCCHHHH
Confidence            699999999999999998888888876553 3456788888999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC---CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQG---NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~---~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +.+..|+..+....   ..+.|+++|+||+|+...+.+...++..+++.++++++++||++|.|++++|+++++.+..+.
T Consensus        87 ~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~l~~~~  166 (190)
T cd04144          87 ERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRALRQQR  166 (190)
T ss_pred             HHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHHHHHHhh
Confidence            99999998887643   257899999999999877778888888888888999999999999999999999999988777


Q ss_pred             CCCccccccccccCCCCCCCCCCC
Q 030225          158 PSRQTGMKLHTESHGGGRRGFCCS  181 (181)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~~~cc~  181 (181)
                      ....+....+..+..++++  ||+
T Consensus       167 ~~~~~~~~~~~~~~~~~~~--~~~  188 (190)
T cd04144         167 QGGQGPKGGPTKKKEKKKR--KCV  188 (190)
T ss_pred             cccCCCcCCCCCccccccc--Cce
Confidence            7666665555555555544  553

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.

>cd04125 RabA_like RabA-like subfamily

Probab=100.00  E-value=2e-36  Score=209.82  Aligned_cols=178  Identities=35%  Similarity=0.567  Sum_probs=154.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++++.++....+.+++..+.+.+||++|++.+..++..+++++|++|+|||++++++|
T Consensus         9 ~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~~~~~s~   88 (188)
T cd04125           9 YGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDVTDQESF   88 (188)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEEECcCHHHH
Confidence            68999999999999999887889999888888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCCCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSR  160 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~~  160 (181)
                      +.+..|+..+........|+++++||+|+.+...+...++..+++..+++++++||+++.|++++|++|++.+..+....
T Consensus        89 ~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~~~f~~l~~~~~~~~~~~  168 (188)
T cd04125          89 ENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAKQSINVEEAFILLVKLIIKRLEEQ  168 (188)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHhhcC
Confidence            99999999998765567899999999999877777888888888888999999999999999999999999998876655


Q ss_pred             ccccccccccCCCCCCCCCCC
Q 030225          161 QTGMKLHTESHGGGRRGFCCS  181 (181)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~cc~  181 (181)
                      ....+-...+..++   .||+
T Consensus       169 ~~~~~~~~~~~~~~---~~~~  186 (188)
T cd04125         169 ELSPKNIKQQFKKK---NNCF  186 (188)
T ss_pred             cCCccccccccccc---cCcc
Confidence            55544333333333   5664

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.

>cd04112 Rab26 Rab26 subfamily

Probab=100.00  E-value=2.2e-36  Score=209.97  Aligned_cols=179  Identities=37%  Similarity=0.658  Sum_probs=153.0

Q ss_pred             CCCchhHHHHHHhhCCCCC-ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFD-FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|||||||+++|..+.+.. .+.++++.++....+.+++..+.+.|||+||++.+..++..+++++|++|+|||++++++
T Consensus         9 ~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s   88 (191)
T cd04112           9 SGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDITNKAS   88 (191)
T ss_pred             CCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECCCHHH
Confidence            6999999999999988753 567888888877778889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCCC
Q 030225           80 FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS  159 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~  159 (181)
                      ++++..|+..+......+.|+++++||+|+...+.+..+++..++..++++++++||++|.|++++|++|++.+.+....
T Consensus        89 ~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l~~~~~~~~~~  168 (191)
T cd04112          89 FDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHRKYE  168 (191)
T ss_pred             HHHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhccc
Confidence            99999999999887656889999999999976677777888888888899999999999999999999999999988655


Q ss_pred             Ccccccccc---ccCCCCCCCCCC
Q 030225          160 RQTGMKLHT---ESHGGGRRGFCC  180 (181)
Q Consensus       160 ~~~~~~~~~---~~~~~~~~~~cc  180 (181)
                      ..+..++..   +...+|.+ +||
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~-~~~  191 (191)
T cd04112         169 QPDEGKFKISDYVTKQKKIS-RCC  191 (191)
T ss_pred             cCCCCcEEeccccCcccccC-CCC
Confidence            444444322   23444444 788

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.

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

Probab=100.00  E-value=2.7e-37  Score=203.28  Aligned_cols=159  Identities=37%  Similarity=0.679  Sum_probs=149.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||+|||||+++|...+|...+..|+|.++..+++.+++..+.++||||+|+++|.++...|++++|..++|||++++.+|
T Consensus        18 sGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDcCvlvydv~~~~Sf   97 (210)
T KOG0394|consen   18 SGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVNNPKSF   97 (210)
T ss_pred             CCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCceEEEEeecCChhhh
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC----CCceEEEEEeCCCCccc--ccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGN----PNLIMFLVANKVDLEEK--RKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~----~~~p~ivi~nK~D~~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +.+..|.+++..+..    ...|++|+|||+|+.+.  ++++...++.+++..| ++|||+||+...||.+.|+.+...+
T Consensus        98 e~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~NV~~AFe~ia~~a  177 (210)
T KOG0394|consen   98 ENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEATNVDEAFEEIARRA  177 (210)
T ss_pred             ccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEecccccccHHHHHHHHHHHH
Confidence            999999999988654    46799999999999653  8899999999999986 9999999999999999999999999


Q ss_pred             HhhCCC
Q 030225          154 AEVNPS  159 (181)
Q Consensus       154 ~~~~~~  159 (181)
                      .+....
T Consensus       178 L~~E~~  183 (210)
T KOG0394|consen  178 LANEDR  183 (210)
T ss_pred             Hhccch
Confidence            988764

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

Probab=100.00  E-value=3.5e-37  Score=207.18  Aligned_cols=158  Identities=41%  Similarity=0.724  Sum_probs=153.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||-|+.|+..+.|..+..+|+|+++....+.+++..++.+||||+|+++|+....+|++.+.++++|||++...+|
T Consensus        23 S~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrgAvGAllVYDITr~~Tf  102 (222)
T KOG0087|consen   23 SAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITRRQTF  102 (222)
T ss_pred             CccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhcccceeEEEEechhHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+.+|+.+++.+..+++++++||||+||...+.+..+++..++...++.++++||.++.|+++.|+.++..+....+
T Consensus       103 env~rWL~ELRdhad~nivimLvGNK~DL~~lraV~te~~k~~Ae~~~l~f~EtSAl~~tNVe~aF~~~l~~I~~~vs  180 (222)
T KOG0087|consen  103 ENVERWLKELRDHADSNIVIMLVGNKSDLNHLRAVPTEDGKAFAEKEGLFFLETSALDATNVEKAFERVLTEIYKIVS  180 (222)
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEeecchhhhhccccchhhhHhHHHhcCceEEEecccccccHHHHHHHHHHHHHHHHH
Confidence            999999999999998999999999999999999999999999999999999999999999999999999998887544

>cd04110 Rab35 Rab35 subfamily

Probab=100.00  E-value=4.1e-36  Score=209.82  Aligned_cols=157  Identities=38%  Similarity=0.653  Sum_probs=143.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.+|++.++....+..++..+.+.+||+||++.+..++..++++++++++|||++++++|
T Consensus        15 ~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~~~~~s~   94 (199)
T cd04110          15 SGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESF   94 (199)
T ss_pred             CCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEECCCHHHH
Confidence            69999999999999999888889999888888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+..|++.+.... +..|+++|+||+|+.....+...++..+++..+++++++||++|.||+++|++|+..+...+.
T Consensus        95 ~~~~~~~~~i~~~~-~~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~lf~~l~~~~~~~~~  171 (199)
T cd04110          95 VNVKRWLQEIEQNC-DDVCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCITELVLRAKK  171 (199)
T ss_pred             HHHHHHHHHHHHhC-CCCCEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHHHHHHHHHHHHhhh
Confidence            99999999987654 678999999999998777777788888888889999999999999999999999999887544

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

>cd04122 Rab14 Rab14 subfamily

Probab=100.00  E-value=4.4e-36  Score=204.19  Aligned_cols=155  Identities=44%  Similarity=0.772  Sum_probs=143.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+...+.++++.++....+..++..+++.+||+||++.+..++..+++++|++|+|||++++++|
T Consensus        11 ~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   90 (166)
T cd04122          11 MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTY   90 (166)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHH
Confidence            69999999999999999988888999888888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+.....++.|+++++||+|+.+.+.+..+++..+++..+++++++||++|+|++++|.+++..+.+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l~~~~~~  165 (166)
T cd04122          91 NHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAKKIYQ  165 (166)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            999999999877656788999999999998878888889999999999999999999999999999999988754

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

>PLN03110 Rab GTPase; Provisional

Probab=100.00  E-value=1.3e-35  Score=209.57  Aligned_cols=156  Identities=41%  Similarity=0.741  Sum_probs=144.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.+|++.++....+.+++..+.+.+||++|++.+..++..++++++++++|||++++.+|
T Consensus        21 ~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~  100 (216)
T PLN03110         21 SGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTF  100 (216)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCEEEEEEECCChHHH
Confidence            68999999999999999888889999999888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+..+......+.|+++++||+|+...+.+..+++..++..++++++++||++|.|++++|++|+..+.+.
T Consensus       101 ~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~v~~lf~~l~~~i~~~  176 (216)
T PLN03110        101 DNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTILLEIYHI  176 (216)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            9999999999887656899999999999987778888888889888899999999999999999999999988763

>cd04111 Rab39 Rab39 subfamily

Probab=100.00  E-value=1e-35  Score=209.37  Aligned_cols=158  Identities=37%  Similarity=0.696  Sum_probs=142.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEE-CCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSL-NEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|||||||+++|.++.+...+.+|++.++....+.+ ++..+.+.+||++|++.+..++..+++++|++++|||++++++
T Consensus        11 ~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~S   90 (211)
T cd04111          11 STVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNRES   90 (211)
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEEEEECCCHHH
Confidence            699999999999999998888899998888877776 4667899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCC-CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           80 FERAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      |+.+..|+..+..... ..+|+++|+||+|+.....+..+++..+++.++++++++||++|.|++++|++|++.+.++..
T Consensus        91 f~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~~~~~~~~  170 (211)
T cd04111          91 FEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLTQEIYERIK  170 (211)
T ss_pred             HHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            9999999999877543 457889999999998877888888999999999999999999999999999999998887644

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.

>cd04126 Rab20 Rab20 subfamily

Probab=100.00  E-value=7.2e-36  Score=210.25  Aligned_cols=175  Identities=33%  Similarity=0.537  Sum_probs=142.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+.. +.+|++.++....+    ..+.+.+||++|++.|..++..+++++|++|+|||++++++|
T Consensus         9 ~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~----~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dvt~~~Sf   83 (220)
T cd04126           9 MNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW----GPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSL   83 (220)
T ss_pred             CCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe----eEEEEEEEeCCCcccchhhHHHHhccCCEEEEEEECCCHHHH
Confidence            6899999999999999875 56888866544332    567899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcc-------------------cccCCHHHHHHHHHHcC-------------
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEE-------------------KRKVKNEEGELYAQENG-------------  128 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~-------------------~~~~~~~~~~~~~~~~~-------------  128 (181)
                      +.+..|+..+......+.|+++|+||+|+.+                   .+++..+++..++++.+             
T Consensus        84 ~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~~~~~~~~~  163 (220)
T cd04126          84 EELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAA  163 (220)
T ss_pred             HHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCccccccccccccc
Confidence            9999888888775556789999999999965                   57888899999998876             


Q ss_pred             -CeEEEEecCCCCCHHHHHHHHHHHHHhhCCCC----ccccccccccCCCCCCCCCC
Q 030225          129 -LSFLETSAKSAHNVNELFYEIAKRLAEVNPSR----QTGMKLHTESHGGGRRGFCC  180 (181)
Q Consensus       129 -~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~cc  180 (181)
                       ++|+++||++|.||+++|..+++.+.+.....    ++.--.-...+.++.+++||
T Consensus       164 ~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  220 (220)
T cd04126         164 EKMCFETSAKTGYNVDELFEYLFNLVLPLILAQRAEANRTQGTVNLPNPKRSKSKCC  220 (220)
T ss_pred             cceEEEeeCCCCCCHHHHHHHHHHHHHHHHHhhhhhhhhhhccccCCCcccCCCCCC
Confidence             68999999999999999999998877543222    22111223344555555888

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=2.3e-35  Score=208.83  Aligned_cols=154  Identities=23%  Similarity=0.429  Sum_probs=139.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+...+.||++..+. ..+.+++..+.+.||||+|++.|..+++.+++++|++|+|||++++++|
T Consensus        22 ~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~-~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vIlVyDit~~~Sf  100 (232)
T cd04174          22 VQCGKTAMLQVLAKDCYPETYVPTVFENYT-AGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETV  100 (232)
T ss_pred             CCCcHHHHHHHHhcCCCCCCcCCceeeeeE-EEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcEEEEEEECCChHHH
Confidence            589999999999999999999999987764 4577889999999999999999999999999999999999999999999


Q ss_pred             HH-HHHHHHHHHHhCCCCceEEEEEeCCCCcc------------cccCCHHHHHHHHHHcCC-eEEEEecCCCC-CHHHH
Q 030225           81 ER-AKKWVQELQRQGNPNLIMFLVANKVDLEE------------KRKVKNEEGELYAQENGL-SFLETSAKSAH-NVNEL  145 (181)
Q Consensus        81 ~~-~~~~~~~~~~~~~~~~p~ivi~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~-gi~~~  145 (181)
                      +. +..|+..+.... ++.|+++|+||+|+.+            .+.+..+++..+++.+++ .|++|||++|+ ||+++
T Consensus       101 ~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~EtSAktg~~~V~e~  179 (232)
T cd04174         101 DSALKKWKAEIMDYC-PSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLECSAFTSEKSIHSI  179 (232)
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEEccCCcCCcCHHHH
Confidence            98 489999998764 5789999999999854            367888999999999998 69999999998 89999


Q ss_pred             HHHHHHHHHhh
Q 030225          146 FYEIAKRLAEV  156 (181)
Q Consensus       146 ~~~l~~~~~~~  156 (181)
                      |+.++..+.++
T Consensus       180 F~~~~~~~~~~  190 (232)
T cd04174         180 FRSASLLCLNK  190 (232)
T ss_pred             HHHHHHHHHHh
Confidence            99999988775

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.

>cd04109 Rab28 Rab28 subfamily

Probab=100.00  E-value=3.7e-35  Score=207.27  Aligned_cols=156  Identities=35%  Similarity=0.542  Sum_probs=141.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECC-eEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNE-VTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|||||||+++|.++.+...+.+|++.++....+.+++ ..+.+.+||++|++.+..++..+++++|++|+|||++++++
T Consensus         9 ~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV~D~t~~~s   88 (215)
T cd04109           9 GAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLVYDVTNSQS   88 (215)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEEEECCCHHH
Confidence            69999999999999999999999999998888887765 57899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCC---CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           80 FERAKKWVQELQRQGN---PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~---~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      |+.+..|+..+.....   ..+|+++|+||+|+.+.+.+..+++..+++.++++++++||++|+|++++|++|+..+...
T Consensus        89 ~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~gv~~lf~~l~~~l~~~  168 (215)
T cd04109          89 FENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDRVNLLFQQLAAELLGV  168 (215)
T ss_pred             HHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            9999999999977532   3568999999999987778888888999999999999999999999999999999998865

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

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=1.8e-35  Score=203.38  Aligned_cols=152  Identities=28%  Similarity=0.487  Sum_probs=137.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+...+.||++..+. ..+.+++..+.+.+|||+|++.|..+++.+++++|++|+|||++++++|
T Consensus        14 ~~vGKTsli~~~~~~~f~~~~~pT~~~~~~-~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~ilvyDit~~~Sf   92 (182)
T cd04172          14 SQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETL   92 (182)
T ss_pred             CCCCHHHHHHHHHhCCCCCccCCceeeeeE-EEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEEEEEECCCHHHH
Confidence            589999999999999999999999987664 5677899999999999999999999999999999999999999999999


Q ss_pred             HHH-HHHHHHHHHhCCCCceEEEEEeCCCCcc------------cccCCHHHHHHHHHHcCC-eEEEEecCCCCC-HHHH
Q 030225           81 ERA-KKWVQELQRQGNPNLIMFLVANKVDLEE------------KRKVKNEEGELYAQENGL-SFLETSAKSAHN-VNEL  145 (181)
Q Consensus        81 ~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~g-i~~~  145 (181)
                      +.+ ..|+..+.... ++.|+++||||+|+.+            .+.+..+++.++++.+++ +|+++||++|+| |+++
T Consensus        93 ~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~n~v~~~  171 (182)
T cd04172          93 DSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDI  171 (182)
T ss_pred             HHHHHHHHHHHHHHC-CCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEECCcCCCCCCHHHH
Confidence            997 79999998765 6799999999999854            246888999999999995 899999999998 9999


Q ss_pred             HHHHHHHHH
Q 030225          146 FYEIAKRLA  154 (181)
Q Consensus       146 ~~~l~~~~~  154 (181)
                      |+.++..+.
T Consensus       172 F~~~~~~~~  180 (182)
T cd04172         172 FHVATLACV  180 (182)
T ss_pred             HHHHHHHHh
Confidence            999998654

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

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=2e-35  Score=201.96  Aligned_cols=151  Identities=32%  Similarity=0.581  Sum_probs=136.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+.++..+.+...+.+|++..+. ..+.+++..+++.+||++|++.|..++..+++++|++|+|||++++++|
T Consensus        10 ~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~-~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvyd~~~~~Sf   88 (176)
T cd04133          10 GAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLISRASY   88 (176)
T ss_pred             CCCcHHHHHHHHhcCCCCCCCCCcceeeeE-EEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEEEcCCHHHH
Confidence            689999999999999999889999987664 4567888999999999999999999999999999999999999999999


Q ss_pred             HHH-HHHHHHHHHhCCCCceEEEEEeCCCCcccc----------cCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHH
Q 030225           81 ERA-KKWVQELQRQGNPNLIMFLVANKVDLEEKR----------KVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYE  148 (181)
Q Consensus        81 ~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~  148 (181)
                      +.+ ..|+..+.... ++.|+++||||+|+.+.+          .+..+++..+++.+++ .++++||++|.||+++|+.
T Consensus        89 ~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~nV~~~F~~  167 (176)
T cd04133          89 ENVLKKWVPELRHYA-PNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVFDA  167 (176)
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCcccCHHHHHHH
Confidence            998 68999987764 579999999999996532          4788899999999997 6999999999999999999


Q ss_pred             HHHHH
Q 030225          149 IAKRL  153 (181)
Q Consensus       149 l~~~~  153 (181)
                      +++.+
T Consensus       168 ~~~~~  172 (176)
T cd04133         168 AIKVV  172 (176)
T ss_pred             HHHHH
Confidence            99876

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=4.2e-35  Score=199.52  Aligned_cols=155  Identities=45%  Similarity=0.754  Sum_probs=143.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.+..+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++++|||++++++|
T Consensus        12 ~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~   91 (167)
T cd01867          12 SGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDEKSF   91 (167)
T ss_pred             CCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEEEEECcCHHHH
Confidence            79999999999999999999999999988888888899889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      .++..|+..+......+.|+++++||+|+.+.+.+..+++..++..++++++++||++|.|++++|+++++.+..
T Consensus        92 ~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~~  166 (167)
T cd01867          92 ENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEAFFTLAKDIKK  166 (167)
T ss_pred             HhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            999999999987655789999999999998777778888888898889999999999999999999999998764

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

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

Probab=100.00  E-value=3e-36  Score=194.74  Aligned_cols=159  Identities=38%  Similarity=0.706  Sum_probs=145.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEE-CCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSL-NEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +-+|||+||+.+..+++.+...||+|+++..+.+.+ ++..+++++|||+|++.|+++.+.|+++.-++++|||.++.+|
T Consensus        17 stvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgvllvyditnr~s   96 (213)
T KOG0091|consen   17 STVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGVLLVYDITNRES   96 (213)
T ss_pred             CcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccceEEEEeccchhh
Confidence            358999999999999999999999999999888766 5677999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCC-CCce-EEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           80 FERAKKWVQELQRQGN-PNLI-MFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~-~~~p-~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      |+.+..|+++...+.. |.++ +++||+|+||...+++..++++.+++.+|+.++|+||++|.|+++.|+.|.+.+...-
T Consensus        97 fehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~hgM~FVETSak~g~NVeEAF~mlaqeIf~~i  176 (213)
T KOG0091|consen   97 FEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAASHGMAFVETSAKNGCNVEEAFDMLAQEIFQAI  176 (213)
T ss_pred             HHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHHhcCceEEEecccCCCcHHHHHHHHHHHHHHHH
Confidence            9999999999877654 4444 5777999999999999999999999999999999999999999999999999888764


Q ss_pred             CC
Q 030225          158 PS  159 (181)
Q Consensus       158 ~~  159 (181)
                      ..
T Consensus       177 ~q  178 (213)
T KOG0091|consen  177 QQ  178 (213)
T ss_pred             hc
Confidence            43

>cd01865 Rab3 Rab3 subfamily

Probab=100.00  E-value=5.3e-35  Score=198.69  Aligned_cols=155  Identities=35%  Similarity=0.640  Sum_probs=141.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++++.++....+..++..+.+.+||++|++.+..++..+++++|++++|||+++++++
T Consensus        10 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~d~~~~~s~   89 (165)
T cd01865          10 SSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESF   89 (165)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEEECCCHHHH
Confidence            69999999999999999888889999888777777788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+.......+|+++++||+|+.+.+.+..+++..++...+++++++||+++.|+.++|++++..+.+
T Consensus        90 ~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~  164 (165)
T cd01865          90 NAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENINVKQVFERLVDIICD  164 (165)
T ss_pred             HHHHHHHHHHHHhCCCCCCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            999999999987665688999999999998777777788888888889999999999999999999999987654

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

>cd04118 Rab24 Rab24 subfamily

Probab=100.00  E-value=1.1e-34  Score=201.82  Aligned_cols=177  Identities=40%  Similarity=0.643  Sum_probs=147.1

Q ss_pred             CCCchhHHHHHHhhCCCCC-ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFD-FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      ||||||||+++|.++.+.. .+.+|++.++....+.+++..+.+.+||++|++.+..++..+++++|++++|||++++.+
T Consensus         9 ~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s   88 (193)
T cd04118           9 ESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSS   88 (193)
T ss_pred             CCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEEEECCCHHH
Confidence            7999999999999998874 678899988888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCceEEEEEeCCCCccc----ccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           80 FERAKKWVQELQRQGNPNLIMFLVANKVDLEEK----RKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ++.+..|+..+.... ++.|+++|+||+|+.+.    ..+...++..++...+++++++||+++.|++++|++|++.+.+
T Consensus        89 ~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~  167 (193)
T cd04118          89 FERAKFWVKELQNLE-EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKVAEDFVS  167 (193)
T ss_pred             HHHHHHHHHHHHhcC-CCCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            999999999987753 57899999999998532    3455566778888888999999999999999999999999987


Q ss_pred             hCCCC---ccccccccccCCCCCCCCCC
Q 030225          156 VNPSR---QTGMKLHTESHGGGRRGFCC  180 (181)
Q Consensus       156 ~~~~~---~~~~~~~~~~~~~~~~~~cc  180 (181)
                      .....   .+...+..  +..+..++||
T Consensus       168 ~~~~~~~~~~~~~~~~--~~~~~~~~~~  193 (193)
T cd04118         168 RANNQMNTEKGVDLGQ--KKNSYFYSCC  193 (193)
T ss_pred             hcccccCCCCccccCC--cCCCCCCCCC
Confidence            64432   22333333  2233444788

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

>cd04117 Rab15 Rab15 subfamily

Probab=100.00  E-value=4.8e-35  Score=198.14  Aligned_cols=152  Identities=38%  Similarity=0.674  Sum_probs=141.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||++++..+.+.+.+.+|++.++....+.+++..+.+.+||++|++.+..++..+++++|++++|||++++++|
T Consensus         9 ~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~sf   88 (161)
T cd04117           9 SGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSY   88 (161)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEEECCCHHHH
Confidence            69999999999999999988899999888888888898889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      +.+..|+..+......+.|+++++||.|+.+.+.+..+++..+++..+++++++||++|.|++++|.+|++.
T Consensus        89 ~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117          89 QHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHhh
Confidence            999999999887655679999999999998878888889999999899999999999999999999999864

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

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=100.00  E-value=5.3e-35  Score=199.84  Aligned_cols=156  Identities=30%  Similarity=0.526  Sum_probs=139.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+...+.+|++..+. ..+.+++..+.+.+||+||+..+..++..++.++|++|+|||++++.+|
T Consensus        11 ~~vGKTsL~~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv~d~~~~~Sf   89 (172)
T cd04141          11 GGVGKSAVTMQFISHSFPDYHDPTIEDAYK-QQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHSF   89 (172)
T ss_pred             CCCcHHHHHHHHHhCCCCCCcCCcccceEE-EEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEEEECCchhHH
Confidence            689999999999999998888899886553 4567788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +.+..|...+.... ..+.|+++|+||+|+.+.+++..+++..+++.++++++++||++|.||+++|++|+..+.+..
T Consensus        90 ~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~  167 (172)
T cd04141          90 QEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETSAALRHYIDDAFHGLVREIRRKE  167 (172)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            99998888776643 367999999999999877888888999999999999999999999999999999999887643

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

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

Probab=100.00  E-value=6e-36  Score=190.14  Aligned_cols=160  Identities=34%  Similarity=0.617  Sum_probs=151.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +.||||||+.++.+..+.+.+.+|.|+++...++--....+++++|||.|++.|+.+...++++++++|++||+++.+||
T Consensus        30 ssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRgamgfiLmyDitNeeSf  109 (193)
T KOG0093|consen   30 SSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESF  109 (193)
T ss_pred             CCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhccceEEEEEecCCHHHH
Confidence            46899999999999999999999999999998876677789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCCCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSR  160 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~~  160 (181)
                      ..++.|.-.+...+-.+.|+++++||||+.+++.++-+.++.+++++|+.+||+||+.+.|++.+|+.++..+.++.+.+
T Consensus       110 ~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtSaK~NinVk~~Fe~lv~~Ic~kmses  189 (193)
T KOG0093|consen  110 NSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISHERGRQLADQLGFEFFETSAKENINVKQVFERLVDIICDKMSES  189 (193)
T ss_pred             HHHHHHHHHheeeeccCceEEEEecccCCccceeeeHHHHHHHHHHhChHHhhhcccccccHHHHHHHHHHHHHHHhhhh
Confidence            99999999998888789999999999999999999999999999999999999999999999999999999999876643

>PTZ00369 Ras-like protein; Provisional

Probab=100.00  E-value=4e-35  Score=203.34  Aligned_cols=157  Identities=36%  Similarity=0.584  Sum_probs=140.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||++++.++.+...+.+|++..+ ...+.+++..+.+.+||+||++.+..++..+++++|++++|||++++++|
T Consensus        14 ~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iilv~D~s~~~s~   92 (189)
T PTZ00369         14 GGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITSRSSF   92 (189)
T ss_pred             CCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEEEEECCCHHHH
Confidence            69999999999999999888888887666 45667888899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+..|+..+.... ..+.|+++++||+|+.+.+.+...++..+++.++++++++||++|.|++++|++|++.+.+..+
T Consensus        93 ~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi~~~~~~l~~~l~~~~~  171 (189)
T PTZ00369         93 EEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREIRKYLK  171 (189)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            99999999887653 3578999999999997767777777888888889999999999999999999999998877644

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=5.6e-35  Score=200.47  Aligned_cols=152  Identities=28%  Similarity=0.484  Sum_probs=136.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.||++..+. ..+.+++..+.+.+|||+|++.|..+++.+++++|++|+|||++++++|
T Consensus        10 ~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilvfdit~~~Sf   88 (178)
T cd04131          10 VQCGKTALLQVFAKDCYPETYVPTVFENYT-ASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLICFDISRPETL   88 (178)
T ss_pred             CCCCHHHHHHHHHhCcCCCCcCCceEEEEE-EEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEEEECCChhhH
Confidence            689999999999999999999999987764 5677889999999999999999999999999999999999999999999


Q ss_pred             HHH-HHHHHHHHHhCCCCceEEEEEeCCCCcc------------cccCCHHHHHHHHHHcCC-eEEEEecCCCCC-HHHH
Q 030225           81 ERA-KKWVQELQRQGNPNLIMFLVANKVDLEE------------KRKVKNEEGELYAQENGL-SFLETSAKSAHN-VNEL  145 (181)
Q Consensus        81 ~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~g-i~~~  145 (181)
                      +.+ ..|+..+.... ++.|+++||||+|+.+            .+.+..+++.++++.+++ +|+++||++|+| |+++
T Consensus        89 ~~~~~~w~~~i~~~~-~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~~~~~~v~~~  167 (178)
T cd04131          89 DSVLKKWRGEIQEFC-PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAFTSEKSVRDI  167 (178)
T ss_pred             HHHHHHHHHHHHHHC-CCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccCcCCcCHHHH
Confidence            996 79999998765 6889999999999854            245888999999999997 899999999995 9999


Q ss_pred             HHHHHHHHH
Q 030225          146 FYEIAKRLA  154 (181)
Q Consensus       146 ~~~l~~~~~  154 (181)
                      |..++..+.
T Consensus       168 F~~~~~~~~  176 (178)
T cd04131         168 FHVATMACL  176 (178)
T ss_pred             HHHHHHHHh
Confidence            999998654

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.

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

Probab=100.00  E-value=2.8e-36  Score=194.08  Aligned_cols=155  Identities=43%  Similarity=0.752  Sum_probs=147.6

Q ss_pred             CchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHH
Q 030225            3 TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFER   82 (181)
Q Consensus         3 ~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   82 (181)
                      +|||||+-|++.++|...+..|+...+..+.+++.+....+.||||+|++.|+.+-+.|+++.+++++|||++|.+||+.
T Consensus        24 VGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgSnGalLVyDITDrdSFqK  103 (218)
T KOG0088|consen   24 VGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGSNGALLVYDITDRDSFQK  103 (218)
T ss_pred             cchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEEeCCCceEEEEeccchHHHHH
Confidence            79999999999999999999999888889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           83 AKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        83 ~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ++.|+.+++.-....+-++||+||+|+.+.+.+..+++..++..-|..|+++||+++.||.++|+.|...+.+..
T Consensus       104 VKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk~N~Gi~elFe~Lt~~MiE~~  178 (218)
T KOG0088|consen  104 VKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAKDNVGISELFESLTAKMIEHS  178 (218)
T ss_pred             HHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHHHHHHHHHhhchhheecccccccCHHHHHHHHHHHHHHHh
Confidence            999999998866678889999999999999999999999999999999999999999999999999999888754

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=100.00  E-value=1.1e-34  Score=197.19  Aligned_cols=155  Identities=43%  Similarity=0.752  Sum_probs=142.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+...+.++.+.++....+.+++..+++.+||+||++.+..++..+++++|++|+|||+++++++
T Consensus        11 ~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~   90 (166)
T cd01869          11 SGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESF   90 (166)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEEEECcCHHHH
Confidence            69999999999999999888889999888888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ..+..|+..+.....++.|+++++||+|+.....+..+++..+++.++++++++||++|+|+.++|++|++.+..
T Consensus        91 ~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~~  165 (166)
T cd01869          91 NNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVEQAFMTMAREIKK  165 (166)
T ss_pred             HhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHHHHHHHHHHHh
Confidence            999999999977655678999999999998777788888899999899999999999999999999999987753

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

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

Probab=100.00  E-value=1.2e-34  Score=201.63  Aligned_cols=153  Identities=33%  Similarity=0.573  Sum_probs=137.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+.+.+...+.+|+|.++....+.+++..+.+.|||++|++.|..++..+++++|++|+|||++++.+|
T Consensus         4 ~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~~S~   83 (200)
T smart00176        4 GGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTY   83 (200)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCChHHH
Confidence            68999999999999999888899999999888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+..+.... .+.|+++|+||+|+.. +.+..+. ..+++..++.++++||++|+||+++|++|+..+...
T Consensus        84 ~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~-~~v~~~~-~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~  156 (200)
T smart00176       84 KNVPNWHRDLVRVC-ENIPIVLCGNKVDVKD-RKVKAKS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  156 (200)
T ss_pred             HHHHHHHHHHHHhC-CCCCEEEEEECccccc-ccCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            99999999998764 6899999999999854 3444443 467778889999999999999999999999988664

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

>cd01875 RhoG RhoG subfamily

Probab=100.00  E-value=1.4e-34  Score=200.88  Aligned_cols=153  Identities=27%  Similarity=0.476  Sum_probs=135.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+...+.||++..+. ..+.+++..+.+.+||++|++.|+.+++.+++++|++|+|||++++++|
T Consensus        12 ~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilvydit~~~Sf   90 (191)
T cd01875          12 GAVGKTCLLICYTTNAFPKEYIPTVFDNYS-AQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIICFSIASPSSY   90 (191)
T ss_pred             CCCCHHHHHHHHHhCCCCcCCCCceEeeeE-EEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEEEECCCHHHH
Confidence            589999999999999998889999987654 4456788899999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENG-LSFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~  146 (181)
                      +.+. .|...+.... ++.|++++|||.|+.+.            ..+..+++..+++.++ ++++++||++|+||+++|
T Consensus        91 ~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SAk~g~~v~e~f  169 (191)
T cd01875          91 ENVRHKWHPEVCHHC-PNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVF  169 (191)
T ss_pred             HHHHHHHHHHHHhhC-CCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCCCCCCCHHHHH
Confidence            9996 6888776653 67999999999999653            2366778889999888 589999999999999999


Q ss_pred             HHHHHHHHh
Q 030225          147 YEIAKRLAE  155 (181)
Q Consensus       147 ~~l~~~~~~  155 (181)
                      ++|++.+..
T Consensus       170 ~~l~~~~~~  178 (191)
T cd01875         170 AEAVRAVLN  178 (191)
T ss_pred             HHHHHHHhc
Confidence            999998854

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

>cd04128 Spg1 Spg1p

Probab=100.00  E-value=1.2e-34  Score=199.50  Aligned_cols=157  Identities=24%  Similarity=0.451  Sum_probs=137.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+.+.+...+.||+|.++....+..++..+.+.+||++|++.|..++..+++++|++++|||++++++|
T Consensus         9 ~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~D~t~~~s~   88 (182)
T cd04128           9 AQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMFDLTRKSTL   88 (182)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEEECcCHHHH
Confidence            58999999999999999988999999998888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcc-----cccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEE-----KRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~-----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +++..|+..+........| ++|+||+|+..     ......+++..+++.++++++++||++|.|++++|+++++.+.+
T Consensus        89 ~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g~~v~~lf~~l~~~l~~  167 (182)
T cd04128          89 NSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFKIVLAKAFD  167 (182)
T ss_pred             HHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            9999999999876545566 67899999852     11223456778888889999999999999999999999998876


Q ss_pred             hCC
Q 030225          156 VNP  158 (181)
Q Consensus       156 ~~~  158 (181)
                      .+.
T Consensus       168 ~~~  170 (182)
T cd04128         168 LPL  170 (182)
T ss_pred             cCC
Confidence            444

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=100.00  E-value=1.8e-34  Score=196.21  Aligned_cols=154  Identities=29%  Similarity=0.637  Sum_probs=141.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|+++.+...+.++++.++....+..++..+.+.+||++|++.+..++..+++++|++|+|||+++++++
T Consensus         9 ~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~   88 (168)
T cd04119           9 SGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSF   88 (168)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEEECCCHHHH
Confidence            79999999999999999999999999998888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC-----CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGN-----PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~-----~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+.....     .+.|+++++||+|+.+......++...++...+++++++||++++|++++|++|++.+.
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~  167 (168)
T cd04119          89 EALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQTLFSSIV  167 (168)
T ss_pred             HhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            999999999987643     46899999999999765667788888888888999999999999999999999998764

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.

>cd04127 Rab27A Rab27a subfamily

Probab=100.00  E-value=2e-34  Score=198.39  Aligned_cols=156  Identities=31%  Similarity=0.560  Sum_probs=140.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEEC----------CeEEEEEEEeCCChhhhhccchhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN----------EVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~----------~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   70 (181)
                      +|||||||+++|.++.+...+.++++.++....+.+.          +..+.+.+||+||++.+..++..+++++|++++
T Consensus        13 ~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   92 (180)
T cd04127          13 SGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLL   92 (180)
T ss_pred             CCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHHHHhCCCCEEEE
Confidence            6999999999999999999999999988876666554          456899999999999999999999999999999


Q ss_pred             EEECCChhHHHHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHH
Q 030225           71 VYDITSMDSFERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        71 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l  149 (181)
                      |||++++++|..+..|+..+.... .++.|+++|+||+|+.+.+.+..+++..+++..+++++++||++|.|++++|++|
T Consensus        93 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~l~~~l  172 (180)
T cd04127          93 IFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAATGTNVEKAVERL  172 (180)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            999999999999999999987753 3578999999999998777888888899999999999999999999999999999


Q ss_pred             HHHHHhh
Q 030225          150 AKRLAEV  156 (181)
Q Consensus       150 ~~~~~~~  156 (181)
                      ++.+.++
T Consensus       173 ~~~~~~~  179 (180)
T cd04127         173 LDLVMKR  179 (180)
T ss_pred             HHHHHhh
Confidence            9987654

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

>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=2.9e-34  Score=194.42  Aligned_cols=154  Identities=38%  Similarity=0.724  Sum_probs=146.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.+|+|.+.....+..++..+.+.+||++|++.+..++..+++++|++|+|||++++++|
T Consensus         8 ~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~~~~~S~   87 (162)
T PF00071_consen    8 SGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDVTDEESF   87 (162)
T ss_dssp             TTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTBHHHH
T ss_pred             CCCCHHHHHHHHHhhccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            68999999999999999999999999999999999999999999999999999999889999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+........|+++++||.|+.+.+++..+++..++++++.+|+++||+++.|+.++|..+++.+.
T Consensus        88 ~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i~~i~  161 (162)
T PF00071_consen   88 ENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEIFQELIRKIL  161 (162)
T ss_dssp             HTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            99999999999887657999999999999888899999999999999999999999999999999999999875

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 ....

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=100.00  E-value=4.3e-34  Score=195.00  Aligned_cols=156  Identities=33%  Similarity=0.612  Sum_probs=138.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+.+.+...+.+|++.++....+.+++..+.+.+||+||++.|..++..+++++|++++|||+++++++
T Consensus         9 ~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~   88 (170)
T cd04108           9 LSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASL   88 (170)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEECcCHHHH
Confidence            68999999999999999999999999998888888889899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC-CCceEEEEEeCCCCccccc--CCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRK--VKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+..+..... ..+|+++|+||+|+....+  ...+++..+++.++.+++++||++|.|++++|+.|+..+.+.
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~v~~lf~~l~~~~~~~  167 (170)
T cd04108          89 EHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSALSGENVREFFFRVAALTFEL  167 (170)
T ss_pred             HHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            999999998866433 4578999999999865433  345667788888889999999999999999999999988654

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

>cd01868 Rab11_like Rab11-like

Probab=100.00  E-value=5.1e-34  Score=193.78  Aligned_cols=153  Identities=44%  Similarity=0.768  Sum_probs=141.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.+..+...+.++++.++....+..++..+.+.+||+||+..+..++..++++++++|+|||++++.++
T Consensus        12 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   91 (165)
T cd01868          12 SGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKQTF   91 (165)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEEEEECcCHHHH
Confidence            79999999999999999888889999988888888898889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      ..+..|+..+......++|+++++||+|+...+++..++...+++..+++++++||++|.|++++|++|++.+
T Consensus        92 ~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i  164 (165)
T cd01868          92 ENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLLTEI  164 (165)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEECccccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            9999999999887655789999999999987777788888888888889999999999999999999998765

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP

>cd01866 Rab2 Rab2 subfamily

Probab=100.00  E-value=6.4e-34  Score=193.90  Aligned_cols=155  Identities=44%  Similarity=0.789  Sum_probs=143.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.+..+...+.++.|.++....+..++..+.+.+||++|++.+..+...+++++|++++|||+++++++
T Consensus        13 ~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v~d~~~~~s~   92 (168)
T cd01866          13 TGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETF   92 (168)
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECCCHHHH
Confidence            79999999999999999888888999988888888999889999999999999999889999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+.....++.|+++++||.|+.....+..+++..++...++.++++||++++|+.++|.++++.+.+
T Consensus        93 ~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~~~~~~~~~~~  167 (168)
T cd01866          93 NHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEAFINTAKEIYE  167 (168)
T ss_pred             HHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            999999999988766789999999999998767778888888898899999999999999999999999988764

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=100.00  E-value=6.4e-34  Score=197.04  Aligned_cols=158  Identities=30%  Similarity=0.505  Sum_probs=135.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEEC-CeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN-EVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|||||||+++|.++.+...+.++++.++... +... +..+.+.+||++|++.+..++..+++++|++++|||++++++
T Consensus         9 ~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~-i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~~~~s   87 (187)
T cd04132           9 GGCGKTCLLIVYSQGKFPEEYVPTVFENYVTN-IQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVDNPTS   87 (187)
T ss_pred             CCCCHHHHHHHHHhCcCCCCCCCeeeeeeEEE-EEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECCCHHH
Confidence            68999999999999999888888888776443 4444 778899999999999999999999999999999999999999


Q ss_pred             HHHHH-HHHHHHHHhCCCCceEEEEEeCCCCccc----ccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHHHHH
Q 030225           80 FERAK-KWVQELQRQGNPNLIMFLVANKVDLEEK----RKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        80 ~~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~----~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      |+.+. .|+..+... .++.|+++++||+|+...    +.+...++.+++..+++ +++++||++|.|+.++|+++++.+
T Consensus        88 ~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~  166 (187)
T cd04132          88 LDNVEDKWFPEVNHF-CPGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEEVFDTAIEEA  166 (187)
T ss_pred             HHHHHHHHHHHHHHh-CCCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHHHHHHHHHHH
Confidence            99985 588777654 367899999999998653    24667788889998888 899999999999999999999999


Q ss_pred             HhhCCCC
Q 030225          154 AEVNPSR  160 (181)
Q Consensus       154 ~~~~~~~  160 (181)
                      .......
T Consensus       167 ~~~~~~~  173 (187)
T cd04132         167 LKKEGKA  173 (187)
T ss_pred             Hhhhhhh
Confidence            8775533

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.

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=100.00  E-value=9.6e-34  Score=199.62  Aligned_cols=156  Identities=26%  Similarity=0.468  Sum_probs=136.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+...+.||++..+. ..+.+++..+.+.|||++|++.|..+++.++.++|++|+|||++++++|
T Consensus        10 ~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~-~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfdis~~~Sf   88 (222)
T cd04173          10 AECGKTALLQVFAKDAYPGSYVPTVFENYT-ASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRPETL   88 (222)
T ss_pred             CCCCHHHHHHHHHcCCCCCccCCccccceE-EEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEECCCHHHH
Confidence            589999999999999999999999987764 5667889999999999999999999999999999999999999999999


Q ss_pred             HHH-HHHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcCC-eEEEEecCCCCC-HHHH
Q 030225           81 ERA-KKWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENGL-SFLETSAKSAHN-VNEL  145 (181)
Q Consensus        81 ~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~g-i~~~  145 (181)
                      +.+ ..|...+... .++.|+++|+||+|+.+.            ..+..+++..++++.++ +|+||||+++++ |+++
T Consensus        89 ~~i~~~w~~~~~~~-~~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk~~~~~V~~~  167 (222)
T cd04173          89 DSVLKKWQGETQEF-CPNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSRSSERSVRDV  167 (222)
T ss_pred             HHHHHHHHHHHHhh-CCCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCCcCCcCHHHH
Confidence            998 4676666554 478999999999998542            24777889999999995 899999999885 9999


Q ss_pred             HHHHHHHHHhhCC
Q 030225          146 FYEIAKRLAEVNP  158 (181)
Q Consensus       146 ~~~l~~~~~~~~~  158 (181)
                      |+.++.+...+.+
T Consensus       168 F~~~~~~~~~~~~  180 (222)
T cd04173         168 FHVATVASLGRGH  180 (222)
T ss_pred             HHHHHHHHHhccC
Confidence            9999998777544

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

>cd04113 Rab4 Rab4 subfamily

Probab=100.00  E-value=8.4e-34  Score=191.98  Aligned_cols=152  Identities=45%  Similarity=0.750  Sum_probs=141.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+...+.++.+.++....+.+++..+.+.+||+||++.+..++..+++++|++++|||+++++++
T Consensus         9 ~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   88 (161)
T cd04113           9 SGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITNRTSF   88 (161)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEEECCCHHHH
Confidence            69999999999999999888889999888888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      ..+..|+..+.....++.|+++++||+|+.....+..+++..+++..++.++++||+++.|++++|+++++.
T Consensus        89 ~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113          89 EALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            999999999877666789999999999998777788888899999999999999999999999999999875

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

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

Probab=100.00  E-value=1.4e-34  Score=185.23  Aligned_cols=156  Identities=43%  Similarity=0.720  Sum_probs=149.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|+|||+||++++..++......|+|+++.++.+++.++.++++||||.|++.|+...+.|++.+.+.++|||+++.++|
T Consensus        18 aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGAAGAlLVYD~Tsrdsf   97 (214)
T KOG0086|consen   18 AGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRDSF   97 (214)
T ss_pred             CCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccccceEEEEeccchhhH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+.-.+....+++.+++++||.|+...+++...++..|+++..+.++++||++|+|+++.|-.....+..+
T Consensus        98 naLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVEEaFl~c~~tIl~k  173 (214)
T KOG0086|consen   98 NALTNWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNK  173 (214)
T ss_pred             HHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccccHHHHHHHHHHHHHHH
Confidence            9999999999888778888999999999999999999999999999999999999999999999999888877664

>cd01874 Cdc42 Cdc42 subfamily

Probab=100.00  E-value=6.2e-34  Score=195.02  Aligned_cols=151  Identities=26%  Similarity=0.467  Sum_probs=132.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+...+.||++..+. ..+..++..+++.+||++|++.+..++..+++++|++|+|||++++++|
T Consensus        10 ~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~   88 (175)
T cd01874          10 GAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSF   88 (175)
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEEEECCCHHHH
Confidence            689999999999999998889999987664 3456788889999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENG-LSFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~  146 (181)
                      +.+. .|+..+.... ++.|+++++||+|+.+.            +.+..+++..++++.+ +.++++||++|+|++++|
T Consensus        89 ~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~tg~~v~~~f  167 (175)
T cd01874          89 ENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVF  167 (175)
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCCCCCCHHHHH
Confidence            9996 5888886654 67899999999998543            4567788888888887 689999999999999999


Q ss_pred             HHHHHHH
Q 030225          147 YEIAKRL  153 (181)
Q Consensus       147 ~~l~~~~  153 (181)
                      +.++.++
T Consensus       168 ~~~~~~~  174 (175)
T cd01874         168 DEAILAA  174 (175)
T ss_pred             HHHHHHh
Confidence            9998854

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

>cd01864 Rab19 Rab19 subfamily

Probab=100.00  E-value=1.2e-33  Score=191.97  Aligned_cols=152  Identities=43%  Similarity=0.734  Sum_probs=138.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+...+.++.+.++....+.+++..+++.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        12 ~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~~~s~   91 (165)
T cd01864          12 SNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSF   91 (165)
T ss_pred             CCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcCHHHH
Confidence            69999999999999999888889998888888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      +.+..|+..+......+.|+++|+||+|+.+.+++...++..+++..+. .++++||++|.|++++|+++++.
T Consensus        92 ~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~l~~~  164 (165)
T cd01864          92 ESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLETSAKESQNVEEAFLLMATE  164 (165)
T ss_pred             HhHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHHHHHHHHHh
Confidence            9999999999876557899999999999987777788888888888875 68999999999999999999864

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

>PLN03118 Rab family protein; Provisional

Probab=100.00  E-value=2.5e-33  Score=197.46  Aligned_cols=180  Identities=37%  Similarity=0.611  Sum_probs=146.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+. .+.++.+.++....+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++++|
T Consensus        23 ~~vGKTsli~~l~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vlv~D~~~~~sf  101 (211)
T PLN03118         23 SGVGKSSLLVSFISSSVE-DLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETF  101 (211)
T ss_pred             CCCCHHHHHHHHHhCCCC-CcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHH
Confidence            699999999999988774 4678888888888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHH-HHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKK-WVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~-~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+.. |...+.... ....|+++|+||+|+.....+..++...++..++++++++||+++.|++++|++|.+.+.....
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~~~~~~~  181 (211)
T PLN03118        102 TNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEELALKIMEVPS  181 (211)
T ss_pred             HHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhhhh
Confidence            99876 555554432 2467899999999998777777788888888889999999999999999999999999987653


Q ss_pred             CC-------ccccccccccCCCCCCCCCCC
Q 030225          159 SR-------QTGMKLHTESHGGGRRGFCCS  181 (181)
Q Consensus       159 ~~-------~~~~~~~~~~~~~~~~~~cc~  181 (181)
                      ..       .++..-.........+.+|||
T Consensus       182 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  211 (211)
T PLN03118        182 LLEEGSTAVKRNILKQKPEHQPPPNGGCCS  211 (211)
T ss_pred             hhhcccccccccccccccccCCCCcCCCCC
Confidence            32       122222223334456656765

>cd04175 Rap1 Rap1 subgroup

Probab=100.00  E-value=7.8e-34  Score=192.69  Aligned_cols=153  Identities=33%  Similarity=0.604  Sum_probs=135.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++++.+.+...+.+|++..+ ...+.+++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        10 ~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~   88 (164)
T cd04175          10 GGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITAQSTF   88 (164)
T ss_pred             CCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEEECCCHHHH
Confidence            69999999999999988888888887655 35677788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+.... ..+.|+++++||+|+.....+...++..+++.++++++++||+++.|++++|++|++.+.
T Consensus        89 ~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~l~  163 (164)
T cd04175          89 NDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQIN  163 (164)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHhh
Confidence            99999999987643 367899999999999876677777778888888999999999999999999999998664

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

>cd04136 Rap_like Rap-like subfamily

Probab=100.00  E-value=6.8e-34  Score=192.67  Aligned_cols=152  Identities=35%  Similarity=0.581  Sum_probs=134.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||++++..+.+...+.+|++. .....+.+++..+.+.+||+||++.+..++..+++++|++++|||+++++++
T Consensus        10 ~~vGKTsl~~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   88 (163)
T cd04136          10 GGVGKSALTVQFVQGIFVEKYDPTIED-SYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSITSQSSF   88 (163)
T ss_pred             CCCCHHHHHHHHHhCCCCcccCCchhh-hEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEEECCCHHHH
Confidence            799999999999999998888888763 3455667888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +.+..|+..+.... ..+.|+++++||+|+.+.+.+..+++..+++.++.+++++||+++.|++++|++|++.+
T Consensus        89 ~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~  162 (163)
T cd04136          89 NDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDEVFADLVRQI  162 (163)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHhc
Confidence            99999999887643 36789999999999977667777777888888889999999999999999999998754

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.

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

Probab=100.00  E-value=9.7e-36  Score=186.53  Aligned_cols=180  Identities=36%  Similarity=0.656  Sum_probs=160.0

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +++|||+|+-|+..+.+. ....+|+|+++....+.+++.++++++|||.|+++|++....|++++|+++++||+.+..|
T Consensus         6 s~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydiankas   85 (192)
T KOG0083|consen    6 SCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIANKAS   85 (192)
T ss_pred             CccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeecccchh
Confidence            579999999998877664 4567899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCCC
Q 030225           80 FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS  159 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~  159 (181)
                      |++.+.|+.++.++....+.+++++||+|+...+.+..++++.++..+++|++++||++|.|++-.|-.|.+.+.+....
T Consensus        86 fdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~ia~~l~k~~~~  165 (192)
T KOG0083|consen   86 FDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEELKKLKMG  165 (192)
T ss_pred             HHHHHHHHHHHHHHHHhhHhHhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhHHHHHHHHHHHHhccC
Confidence            99999999999998878888999999999988899999999999999999999999999999999999999999887554


Q ss_pred             Cccc----cccccccCCCCCCCCCC
Q 030225          160 RQTG----MKLHTESHGGGRRGFCC  180 (181)
Q Consensus       160 ~~~~----~~~~~~~~~~~~~~~cc  180 (181)
                      ..++    ...+.....+++-..||
T Consensus       166 ~~~~~~~~~~~~v~~~~k~eia~cc  190 (192)
T KOG0083|consen  166 APPEGEFADHDSVADEGKGEIARCC  190 (192)
T ss_pred             CCCCCccccchhHHhcCCCcccccc
Confidence            3333    33445555666666788

>smart00175 RAB Rab subfamily of small GTPases

Probab=100.00  E-value=2.7e-33  Score=189.84  Aligned_cols=155  Identities=48%  Similarity=0.842  Sum_probs=142.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.+..+...+.++++.++....+..++..+++.+||+||+..+..++..+++.+|++|+|||++++.++
T Consensus         9 ~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~   88 (164)
T smart00175        9 SGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRESF   88 (164)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEEECCCHHHH
Confidence            79999999999999999888889999988888888999889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+.....+++|+++++||+|+....+...+.+..+++..+++++++||+++.|++++|++|.+.+.+
T Consensus        89 ~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~~~~~~  163 (164)
T smart00175       89 ENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREILK  163 (164)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            999999999988765789999999999987767777788888888889999999999999999999999998764

Rab GTPases are implicated in vesicle trafficking.

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

Probab=100.00  E-value=1.7e-34  Score=184.20  Aligned_cols=156  Identities=43%  Similarity=0.732  Sum_probs=148.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      .|+|||.|++++..+-+++-...|+|+++-..++.+++.+++++||||.|+++|+++...|++.++++|+|||++...+|
T Consensus        16 agvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsahalilvydiscqpsf   95 (213)
T KOG0095|consen   16 AGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHALILVYDISCQPSF   95 (213)
T ss_pred             CCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcceEEEEEecccCcch
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+.++..+....+-.++|+||.|+.+.++++...++.|.......++++||++.+|++.+|..+...+...
T Consensus        96 dclpewlreie~yan~kvlkilvgnk~d~~drrevp~qigeefs~~qdmyfletsakea~nve~lf~~~a~rli~~  171 (213)
T KOG0095|consen   96 DCLPEWLREIEQYANNKVLKILVGNKIDLADRREVPQQIGEEFSEAQDMYFLETSAKEADNVEKLFLDLACRLISE  171 (213)
T ss_pred             hhhHHHHHHHHHHhhcceEEEeeccccchhhhhhhhHHHHHHHHHhhhhhhhhhcccchhhHHHHHHHHHHHHHHH
Confidence            9999999999998878888899999999999999999999999999999999999999999999999988766553

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

Probab=100.00  E-value=2.7e-33  Score=190.44  Aligned_cols=153  Identities=34%  Similarity=0.578  Sum_probs=135.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++++.+.+...+.++++.++....+..++..+.+.+||++|++.+..++..++..+|++|+|||+++++++
T Consensus         9 ~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   88 (166)
T cd00877           9 GGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDVTSRVTY   88 (166)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEEECCCHHHH
Confidence            68999999999999998888889999888888888888899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ..+..|+..+.... .+.|+++++||+|+.+ ..+. .+..++.+..++.++++||++|+|++++|++|++.+.+.
T Consensus        89 ~~~~~~~~~i~~~~-~~~piiiv~nK~Dl~~-~~~~-~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~  161 (166)
T cd00877          89 KNVPNWHRDLVRVC-GNIPIVLCGNKVDIKD-RKVK-AKQITFHRKKNLQYYEISAKSNYNFEKPFLWLARKLLGN  161 (166)
T ss_pred             HHHHHHHHHHHHhC-CCCcEEEEEEchhccc-ccCC-HHHHHHHHHcCCEEEEEeCCCCCChHHHHHHHHHHHHhc
Confidence            99999999998875 3899999999999963 3333 344566777788999999999999999999999988753

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=100.00  E-value=2.1e-33  Score=190.13  Aligned_cols=151  Identities=36%  Similarity=0.631  Sum_probs=137.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEEC--CeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN--EVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMD   78 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~   78 (181)
                      +|||||||+++|.++.+...+.++++.++....+.++  +..+++.+||+||++.+..++..+++++|++++|||+++++
T Consensus         9 ~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~d~~~~~   88 (162)
T cd04106           9 GNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRE   88 (162)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEEECCCHH
Confidence            6899999999999999988888999988877777776  77889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           79 SFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        79 s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      +++.+..|+..+.... .+.|+++++||+|+.....+..+++..+++..+++++++||+++.|++++|++|...
T Consensus        89 s~~~l~~~~~~~~~~~-~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~  161 (162)
T cd04106          89 SFEAIESWKEKVEAEC-GDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLAEK  161 (162)
T ss_pred             HHHHHHHHHHHHHHhC-CCCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            9999999999886653 678999999999998777788888888999999999999999999999999999753

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

>cd04134 Rho3 Rho3 subfamily

Probab=100.00  E-value=1.9e-33  Score=194.98  Aligned_cols=156  Identities=35%  Similarity=0.557  Sum_probs=134.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+...+.||++..+. ..+..++..+.+.+||++|++.+..++..+++++|++|+|||++++++|
T Consensus         9 ~~vGKTsli~~~~~~~~~~~~~~t~~~~~~-~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~~~~sf   87 (189)
T cd04134           9 GACGKTSLLNVFTRGYFPQVYEPTVFENYV-HDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVDSPDSL   87 (189)
T ss_pred             CCCCHHHHHHHHhcCCCCCccCCcceeeeE-EEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEEECCCHHHH
Confidence            699999999999999998888889877654 4456778889999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCcccc------------cCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------------KVKNEEGELYAQENG-LSFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~~------------~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~  146 (181)
                      +.+. .|+..+.... ++.|+++|+||+|+.+..            .+..+++..+++..+ ++++++||++|.|++++|
T Consensus        88 ~~~~~~~~~~i~~~~-~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~e~f  166 (189)
T cd04134          88 ENVESKWLGEIREHC-PGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKLNRGVNEAF  166 (189)
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCcCCCHHHHH
Confidence            9986 6888887654 578999999999986533            345667778887777 789999999999999999


Q ss_pred             HHHHHHHHhhCC
Q 030225          147 YEIAKRLAEVNP  158 (181)
Q Consensus       147 ~~l~~~~~~~~~  158 (181)
                      ++|++.+....+
T Consensus       167 ~~l~~~~~~~~~  178 (189)
T cd04134         167 TEAARVALNVRP  178 (189)
T ss_pred             HHHHHHHhcccc
Confidence            999998875443

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.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=100.00  E-value=1.4e-33  Score=199.53  Aligned_cols=153  Identities=34%  Similarity=0.539  Sum_probs=137.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++++.+.+...+.+|+|.++....+..++..+.+.+||++|++.|..++..+++++|++|+|||++++++|
T Consensus        22 ~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilvfD~~~~~s~  101 (219)
T PLN03071         22 GGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTY  101 (219)
T ss_pred             CCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEEEEEeCCCHHHH
Confidence            69999999999999999999999999998888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+..+.... .+.|++++|||+|+.. ..+..++. .+++..++.|+++||++|.|++++|+||++.+.+.
T Consensus       102 ~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~-~~v~~~~~-~~~~~~~~~~~e~SAk~~~~i~~~f~~l~~~~~~~  174 (219)
T PLN03071        102 KNVPTWHRDLCRVC-ENIPIVLCGNKVDVKN-RQVKAKQV-TFHRKKNLQYYEISAKSNYNFEKPFLYLARKLAGD  174 (219)
T ss_pred             HHHHHHHHHHHHhC-CCCcEEEEEEchhhhh-ccCCHHHH-HHHHhcCCEEEEcCCCCCCCHHHHHHHHHHHHHcC
Confidence            99999999998764 6799999999999854 33444444 67777889999999999999999999999988754

>PLN03108 Rab family protein; Provisional

Probab=100.00  E-value=5.2e-33  Score=195.55  Aligned_cols=157  Identities=41%  Similarity=0.757  Sum_probs=144.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+.+++..+.+.+||++|++.+..++..+++++|++++|||+++++++
T Consensus        15 ~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~~~~~s~   94 (210)
T PLN03108         15 TGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETF   94 (210)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCcHHHH
Confidence            68999999999999999888889999988888888899889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ..+..|+..+........|+++++||+|+...+.+..+++.++++.++++++++||+++.|+.++|+++++.+.+..
T Consensus        95 ~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~e~f~~l~~~~~~~~  171 (210)
T PLN03108         95 NHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKI  171 (210)
T ss_pred             HHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            99999999887765568999999999999877788888999999999999999999999999999999999887653

>cd01861 Rab6 Rab6 subfamily

Probab=100.00  E-value=4.6e-33  Score=188.29  Aligned_cols=152  Identities=45%  Similarity=0.764  Sum_probs=139.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|++..+...+.++.+.++....+..++..+++.+||+||+..+..++..+++++|++++|||++++++|
T Consensus         9 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~   88 (161)
T cd01861           9 QSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSF   88 (161)
T ss_pred             CCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECcCHHHH
Confidence            69999999999999999888889999999888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      +.+..|+..+......+.|+++++||+|+.+......++...+++..+++++++||+++.|++++|++|.+.
T Consensus        89 ~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861          89 DNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence            999999999877654579999999999997667777788888888889999999999999999999999874

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

>cd04176 Rap2 Rap2 subgroup

Probab=100.00  E-value=3.4e-33  Score=189.37  Aligned_cols=152  Identities=36%  Similarity=0.601  Sum_probs=134.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||++++..+.+.+.+.++++ ++....+.+++..+.+.+||++|++.+..++..+++++|++++|||++++.++
T Consensus        10 ~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~   88 (163)
T cd04176          10 GGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVYSLVNQQTF   88 (163)
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEEEECCCHHHH
Confidence            79999999999999999888878775 44456677788888999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +++..|+..+.... ..+.|+++++||+|+.....+...+...++...+++++++||+++.|+.++|.++++.+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd04176          89 QDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIVRQM  162 (163)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHHhc
Confidence            99999999887753 36799999999999976666677777888888889999999999999999999998754

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

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

Probab=100.00  E-value=1.5e-34  Score=186.17  Aligned_cols=157  Identities=32%  Similarity=0.552  Sum_probs=143.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEEC---------CeEEEEEEEeCCChhhhhccchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN---------EVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~---------~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   71 (181)
                      +||||||++.++..+++......|+|+++..+.+.++         +..+++++|||+|+++|+++..+|+++|=+++++
T Consensus        18 SGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSLTTAFfRDAMGFlLi   97 (219)
T KOG0081|consen   18 SGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLI   97 (219)
T ss_pred             CCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHHHHHHHHhhccceEE
Confidence            6999999999999999999999999999887766553         3568999999999999999999999999999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhCC-CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHH
Q 030225           72 YDITSMDSFERAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      ||+++..||-+++.|+.++..+.. .++-+++++||+|+.+.+.+..+++.+++.++++|||++||-+|.|+++..+.|+
T Consensus        98 FDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfETSA~tg~Nv~kave~Ll  177 (219)
T KOG0081|consen   98 FDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFETSACTGTNVEKAVELLL  177 (219)
T ss_pred             EeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeeeeccccCcCHHHHHHHHH
Confidence            999999999999999999988643 6677999999999999999999999999999999999999999999999999988


Q ss_pred             HHHHhhC
Q 030225          151 KRLAEVN  157 (181)
Q Consensus       151 ~~~~~~~  157 (181)
                      ..+.++.
T Consensus       178 dlvM~Ri  184 (219)
T KOG0081|consen  178 DLVMKRI  184 (219)
T ss_pred             HHHHHHH
Confidence            8777653

>cd01860 Rab5_related Rab5-related subfamily

Probab=100.00  E-value=1.4e-32  Score=186.34  Aligned_cols=153  Identities=69%  Similarity=1.046  Sum_probs=141.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++++|++++|||+++++++
T Consensus        10 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   89 (163)
T cd01860          10 SSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESF   89 (163)
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEEECcCHHHH
Confidence            69999999999999999887889999888888889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      .....|+..+.....+..|+++++||+|+.........+...+...+++.++++||++|.|+.++|++|++.+
T Consensus        90 ~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd01860          90 EKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGENVNELFTEIAKKL  162 (163)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            9999999999887667899999999999876677777888888888899999999999999999999999875

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=100.00  E-value=6e-33  Score=189.95  Aligned_cols=150  Identities=27%  Similarity=0.510  Sum_probs=131.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+.+++.+.+...+.++++..+ ...+.+++..+++.+||++|++.+..++..+++++|++|+|||++++++|
T Consensus        10 ~~vGKSsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf   88 (174)
T cd01871          10 GAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF   88 (174)
T ss_pred             CCCCHHHHHHHHhcCCCCCcCCCcceeee-EEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEEECCCHHHH
Confidence            68999999999999999888889886544 44556788889999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENG-LSFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~  146 (181)
                      +.+. .|+..+.... ++.|+++++||+|+.+.            +.+..+++..++++++ ++++++||++|+|++++|
T Consensus        89 ~~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  167 (174)
T cd01871          89 ENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQKGLKTVF  167 (174)
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEecccccCCHHHHH
Confidence            9985 6888776653 68999999999998542            3577888899999888 499999999999999999


Q ss_pred             HHHHHH
Q 030225          147 YEIAKR  152 (181)
Q Consensus       147 ~~l~~~  152 (181)
                      +.+++.
T Consensus       168 ~~l~~~  173 (174)
T cd01871         168 DEAIRA  173 (174)
T ss_pred             HHHHHh
Confidence            999864

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

>cd04124 RabL2 RabL2 subfamily

Probab=100.00  E-value=1.8e-32  Score=185.48  Aligned_cols=152  Identities=31%  Similarity=0.507  Sum_probs=133.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|+.+.+.+.+.++.+.++.......++..+.+.+||++|++.|..++..+++++|++++|||++++.++
T Consensus         9 ~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   88 (161)
T cd04124           9 SAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVFDVTRKITY   88 (161)
T ss_pred             CCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEEECCCHHHH
Confidence            69999999999999999888888888877777778888899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+..+.... ++.|+++++||+|+...   ...+...+++..+++++++||++|.|++++|+.+++.+.+.
T Consensus        89 ~~~~~~~~~i~~~~-~~~p~ivv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  160 (161)
T cd04124          89 KNLSKWYEELREYR-PEIPCIVVANKIDLDPS---VTQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIKLAVSY  160 (161)
T ss_pred             HHHHHHHHHHHHhC-CCCcEEEEEECccCchh---HHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            99999999987653 57899999999998432   23445566777789999999999999999999999887764

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

>cd04116 Rab9 Rab9 subfamily

Probab=100.00  E-value=1.5e-32  Score=187.45  Aligned_cols=151  Identities=34%  Similarity=0.612  Sum_probs=135.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+.+.+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++++|||+++++++
T Consensus        14 ~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   93 (170)
T cd04116          14 GGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFAVDDSQSF   93 (170)
T ss_pred             CCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEEEEEEECCCHHHH
Confidence            69999999999999999888889999888777888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC----CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG----NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        81 ~~~~~~~~~~~~~~----~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      +.+..|...+....    ..+.|+++++||+|+. .+.+..+++.+++++++ .+++++||++|.|+.++|+++++.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~~~~~  169 (170)
T cd04116          94 QNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDYPYFETSAKDATNVAAAFEEAVRR  169 (170)
T ss_pred             HhHHHHHHHHHHhcccccCCCCcEEEEEECcccc-ccccCHHHHHHHHHHCCCCeEEEEECCCCCCHHHHHHHHHhh
Confidence            99999998886643    2568999999999986 45667788888988888 589999999999999999999865

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=100.00  E-value=2e-32  Score=186.86  Aligned_cols=153  Identities=37%  Similarity=0.655  Sum_probs=139.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh-ccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH-SLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      ||||||||+++|+.+.+...+.++++.++....+.+++..+.+.+||++|++.+. .++..+++++|++++|||++++++
T Consensus        11 ~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   90 (170)
T cd04115          11 SNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMAS   90 (170)
T ss_pred             CCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECCCHHH
Confidence            6999999999999999988888999988888888899999999999999998876 578889999999999999999999


Q ss_pred             HHHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCC---CCCHHHHHHHHHHHH
Q 030225           80 FERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKS---AHNVNELFYEIAKRL  153 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~gi~~~~~~l~~~~  153 (181)
                      +..+..|+..+.... ..+.|+++++||+|+.+.+++..+++.++++..+++++++||++   +.+++++|.+|++.+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~i~~~f~~l~~~~  168 (170)
T cd04115          91 FHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIFMTLAHKL  168 (170)
T ss_pred             HHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCCHHHHHHHHHHHh
Confidence            999999999887753 36799999999999988888888888889998899999999999   899999999998765

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

>cd04140 ARHI_like ARHI subfamily

Probab=100.00  E-value=1.2e-32  Score=187.01  Aligned_cols=150  Identities=37%  Similarity=0.504  Sum_probs=131.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++++++.+...+.++++..+ ...+..+...+.+.+||++|++.+..++..+++.+|++++|||+++++++
T Consensus        10 ~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   88 (165)
T cd04140          10 GGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSVTSKQSL   88 (165)
T ss_pred             CCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEEECCCHHHH
Confidence            69999999999999999888888877554 34456677888999999999999999889999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC---CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG---NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        81 ~~~~~~~~~~~~~~---~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +.+..|+..+....   .++.|+++++||+|+...+++...++..++..+++.++++||++|+|++++|++|+.
T Consensus        89 ~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~~f~~l~~  162 (165)
T cd04140          89 EELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHNVQELFQELLN  162 (165)
T ss_pred             HHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCCHHHHHHHHHh
Confidence            99999988776642   267899999999999776777777888888888899999999999999999999975

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=100.00  E-value=1.3e-32  Score=186.60  Aligned_cols=153  Identities=37%  Similarity=0.616  Sum_probs=134.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|+++.+...+.++++..+ .....+++..+.+.+||+||++.+..++..+++++|++++|||+++++++
T Consensus         9 ~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   87 (164)
T smart00173        9 GGVGKSALTIQFVQGHFVDDYDPTIEDSY-RKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSF   87 (164)
T ss_pred             CCCCHHHHHHHHHhCcCCcccCCchhhhE-EEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEEECCCHHHH
Confidence            79999999999999998888877776433 45566788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|...+.... ..+.|+++++||+|+...+.+..+++..+++..+++++++||+++.|++++|++|++.+.
T Consensus        88 ~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  162 (164)
T smart00173       88 EEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREIR  162 (164)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHHHHHHHHHh
Confidence            99999988876642 357899999999999776667777888888888999999999999999999999998764

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

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

Probab=100.00  E-value=1.8e-32  Score=187.72  Aligned_cols=153  Identities=31%  Similarity=0.526  Sum_probs=133.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++++..+ ...+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++++|
T Consensus         7 ~~vGKTsli~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~   85 (174)
T smart00174        7 GAVGKTCLLISYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDSPASF   85 (174)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCcEEeee-eEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEECCCHHHH
Confidence            69999999999999999888888876555 34567788889999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENGL-SFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~  146 (181)
                      +.+. .|+..+.... ++.|+++++||+|+...            ..+..+++..+++..+. .++++||+++.|++++|
T Consensus        86 ~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf  164 (174)
T smart00174       86 ENVKEKWYPEVKHFC-PNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQEGVREVF  164 (174)
T ss_pred             HHHHHHHHHHHHhhC-CCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCCCHHHHH
Confidence            9985 5888887754 68999999999998642            23677788889999986 89999999999999999


Q ss_pred             HHHHHHHHh
Q 030225          147 YEIAKRLAE  155 (181)
Q Consensus       147 ~~l~~~~~~  155 (181)
                      +.|++.+.+
T Consensus       165 ~~l~~~~~~  173 (174)
T smart00174      165 EEAIRAALN  173 (174)
T ss_pred             HHHHHHhcC
Confidence            999987753

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

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

Probab=100.00  E-value=1.2e-32  Score=174.39  Aligned_cols=155  Identities=43%  Similarity=0.757  Sum_probs=148.6

Q ss_pred             CCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHH
Q 030225            2 GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFE   81 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   81 (181)
                      |+|||+|++.+...++-.....|+|+.+..+.+.+.+.+++++|||+.|+++|+...+.|++.+.+.+.|||++.+..+.
T Consensus        21 gvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaagalmvyditrrstyn  100 (215)
T KOG0097|consen   21 GVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYN  100 (215)
T ss_pred             cccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhccccceeEEEEehhhhhhh
Confidence            89999999999999998888899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           82 RAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        82 ~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      .+-.|+-..+....++..+++++||.|+...+++..+++.+|+.++|+.++++||++|+++++.|-...+++.++
T Consensus       101 hlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faeengl~fle~saktg~nvedafle~akkiyqn  175 (215)
T KOG0097|consen  101 HLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLEASAKTGQNVEDAFLETAKKIYQN  175 (215)
T ss_pred             hHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEEecccccCcHHHHHHHHHHHHHHh
Confidence            999999998888789999999999999999999999999999999999999999999999999999888888775

>cd04142 RRP22 RRP22 subfamily

Probab=100.00  E-value=1.7e-32  Score=191.10  Aligned_cols=160  Identities=25%  Similarity=0.276  Sum_probs=133.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc--------cchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS--------LAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~~d~~i~v~   72 (181)
                      ||||||||+++|.++.+...+.|+++.++....+.+++..+.+.+|||||...+..        .....++++|++|+||
T Consensus         9 ~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~ad~iilv~   88 (198)
T cd04142           9 PGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRNSRAFILVY   88 (198)
T ss_pred             CCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhccCCEEEEEE
Confidence            79999999999999999888889988777666777888889999999999654321        1234578999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhC---CCCceEEEEEeCCCCcccccCCHHHHHHHHH-HcCCeEEEEecCCCCCHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQG---NPNLIMFLVANKVDLEEKRKVKNEEGELYAQ-ENGLSFLETSAKSAHNVNELFYE  148 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~---~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~~~~~  148 (181)
                      |++++++|+.+..|+..+....   ..++|+++++||+|+...+.+..+++..++. .++++++++||++|.|++++|+.
T Consensus        89 D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~v~~lf~~  168 (198)
T cd04142          89 DICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILLLFKE  168 (198)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCCCCHHHHHHH
Confidence            9999999999999999887753   4679999999999997766666666666654 56899999999999999999999


Q ss_pred             HHHHHHhhCCCC
Q 030225          149 IAKRLAEVNPSR  160 (181)
Q Consensus       149 l~~~~~~~~~~~  160 (181)
                      ++..+..+-+..
T Consensus       169 i~~~~~~~~~~~  180 (198)
T cd04142         169 LLISATTRGRST  180 (198)
T ss_pred             HHHHhhccCCCc
Confidence            999888765543

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.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=100.00  E-value=4.4e-32  Score=184.03  Aligned_cols=152  Identities=30%  Similarity=0.514  Sum_probs=134.3

Q ss_pred             CCCchhHHHHHHhhC--CCCCccccceeeeEEEEEEEEC-CeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCCh
Q 030225            1 MGTGKTSLVLRFVKG--QFFDFQESTIGAAFFTQVLSLN-EVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSM   77 (181)
Q Consensus         1 ~~~GKttLl~~l~~~--~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   77 (181)
                      +|||||||+++|..+  .+...+.+++|.++....+.++ +..+.+.+||+||+..+..++..+++++|++++|||++++
T Consensus         9 ~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~   88 (164)
T cd04101           9 PAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFILVYDVSNK   88 (164)
T ss_pred             CCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEEEEEECcCH
Confidence            699999999999865  6778888999988877766665 5679999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           78 DSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        78 ~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      ++++.+..|+..+.... .+.|+++|+||+|+....++...+...+....+++++++||+++.|++++|++|++.+
T Consensus        89 ~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  163 (164)
T cd04101          89 ASFENCSRWVNKVRTAS-KHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGYEEPFESLARAF  163 (164)
T ss_pred             HHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHHHHHHHHHHh
Confidence            99999999999987764 6789999999999977677777777777777889999999999999999999998865

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.

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

Probab=100.00  E-value=3.4e-32  Score=184.00  Aligned_cols=151  Identities=32%  Similarity=0.573  Sum_probs=132.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+...+.++++..+ ...+.+++..+.+.+||++|++.+..++..+++++|++++|||+++..++
T Consensus        10 ~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~~~~~~~s~   88 (162)
T cd04138          10 GGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINSRKSF   88 (162)
T ss_pred             CCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEEEECCCHHHH
Confidence            79999999999999998888888887554 45566788888899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +.+..|+..+.... ..+.|+++++||+|+.+ ......++..+++..+++++++||++|.|++++|++|++.+
T Consensus        89 ~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  161 (162)
T cd04138          89 EDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVREI  161 (162)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECccccc-ceecHHHHHHHHHHhCCeEEEecCCCCCCHHHHHHHHHHHh
Confidence            99999998887753 35789999999999865 45566777788888899999999999999999999998754

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.

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

Probab=100.00  E-value=5.1e-32  Score=183.65  Aligned_cols=152  Identities=32%  Similarity=0.537  Sum_probs=133.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||++++++..+...+.++++..+ .....+++..+++.+||+||++++..++..+++++|++++|||++++.++
T Consensus        11 ~~~GKtsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   89 (164)
T cd04145          11 GGVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGSF   89 (164)
T ss_pred             CCCcHHHHHHHHHhCCCCcccCCCccceE-EEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHH
Confidence            79999999999999988888878877544 34456788888999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +.+..|+..+... ...+.|+++++||+|+.....+..+++..+++..+++++++||++|.|++++|++|+..+
T Consensus        90 ~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  163 (164)
T cd04145          90 EEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLNVDKAFHDLVRVI  163 (164)
T ss_pred             HHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEeeCCCCCCHHHHHHHHHHhh
Confidence            9999999888764 235789999999999977667777788888888889999999999999999999998764

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

>cd04123 Rab21 Rab21 subfamily

Probab=100.00  E-value=1.3e-31  Score=181.14  Aligned_cols=153  Identities=48%  Similarity=0.819  Sum_probs=137.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|++..+.+.+.++++.++....+...+..+.+.+||+||+..+..++..+++++|++++|||+++++++
T Consensus         9 ~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   88 (162)
T cd04123           9 GRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSF   88 (162)
T ss_pred             CCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEEECCCHHHH
Confidence            69999999999999988877777887777777777888888999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +.+..|+..+......+.|+++++||+|+.....+..++...+++..+++++++||++++|+++++++|.+.+
T Consensus        89 ~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~~~~~~l~~~~  161 (162)
T cd04123          89 QKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM  161 (162)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            9999999998876556789999999999987677777788888888899999999999999999999998764

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site

>cd01862 Rab7 Rab7 subfamily

Probab=100.00  E-value=1.6e-31  Score=182.47  Aligned_cols=157  Identities=41%  Similarity=0.713  Sum_probs=139.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.+..+...+.++++.++....+..++..+.+.+||+||++.+..++..+++++|++|++||++++.++
T Consensus         9 ~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~   88 (172)
T cd01862           9 SGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTNPKSF   88 (172)
T ss_pred             CCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCCHHHH
Confidence            69999999999999999888888999888888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC----CCceEEEEEeCCCCcccccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGN----PNLIMFLVANKVDLEEKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~----~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|...+.....    .+.|+++++||+|+........++...+++..+ .+++++||++|.|++++|+++++.+.+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~  168 (172)
T cd01862          89 ESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAFETIARKALE  168 (172)
T ss_pred             HHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            999889887755432    378999999999997656666777788888887 799999999999999999999998877


Q ss_pred             hC
Q 030225          156 VN  157 (181)
Q Consensus       156 ~~  157 (181)
                      ..
T Consensus       169 ~~  170 (172)
T cd01862         169 QE  170 (172)
T ss_pred             cc
Confidence            63

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-

>cd01873 RhoBTB RhoBTB subfamily

Probab=100.00  E-value=7.2e-32  Score=187.32  Aligned_cols=149  Identities=24%  Similarity=0.402  Sum_probs=122.6

Q ss_pred             CCCchhHHHH-HHhhC-----CCCCccccceee-eEEEEE--------EEECCeEEEEEEEeCCChhhhhccchhhccCC
Q 030225            1 MGTGKTSLVL-RFVKG-----QFFDFQESTIGA-AFFTQV--------LSLNEVTIKFDIWDTAGQERYHSLAPMYYRGA   65 (181)
Q Consensus         1 ~~~GKttLl~-~l~~~-----~~~~~~~~t~~~-~~~~~~--------~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   65 (181)
                      +|||||||+. ++.+.     .+...+.||++. +.+...        ..+++..+.+.+|||+|++.  .+...+++++
T Consensus        11 ~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~--~~~~~~~~~a   88 (195)
T cd01873          11 NAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHD--KDRRFAYGRS   88 (195)
T ss_pred             CCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChh--hhhcccCCCC
Confidence            5899999995 55543     345667788863 322222        25688899999999999875  3456689999


Q ss_pred             cEEEEEEECCChhHHHHHH-HHHHHHHHhCCCCceEEEEEeCCCCcc-------------------cccCCHHHHHHHHH
Q 030225           66 AAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE-------------------KRKVKNEEGELYAQ  125 (181)
Q Consensus        66 d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~-------------------~~~~~~~~~~~~~~  125 (181)
                      |++|+|||++++.+|+.+. .|+..+.... ++.|+++|+||+|+.+                   .+.+..+++..+++
T Consensus        89 d~iilv~d~t~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~~~e~~~~a~  167 (195)
T cd01873          89 DVVLLCFSIASPNSLRNVKTMWYPEIRHFC-PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAK  167 (195)
T ss_pred             CEEEEEEECCChhHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhccccccchhhhcccccccccccCCccCHHHHHHHHH
Confidence            9999999999999999996 5988887664 5789999999999863                   36788899999999


Q ss_pred             HcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225          126 ENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus       126 ~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      .++++|++|||++|+||+++|+.++++
T Consensus       168 ~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         168 ELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             HhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            999999999999999999999999864

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.

>cd04143 Rhes_like Rhes_like subfamily

Probab=100.00  E-value=9.7e-32  Score=192.66  Aligned_cols=152  Identities=24%  Similarity=0.405  Sum_probs=132.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.+|++ ++....+.+++..+.+.|||++|++.|..++..++.++|++|+|||++++++|
T Consensus         9 ~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVfdv~~~~Sf   87 (247)
T cd04143           9 SKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDNRESF   87 (247)
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEEeCCCHHHH
Confidence            68999999999999999888888886 45556778889999999999999999988888889999999999999999999


Q ss_pred             HHHHHHHHHHHHh---------CCCCceEEEEEeCCCCcccccCCHHHHHHHHHH-cCCeEEEEecCCCCCHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ---------GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        81 ~~~~~~~~~~~~~---------~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      +++..|+..+...         ...+.|+++++||+|+...+++..++..+++.. .++.++++||+++.|++++|++|+
T Consensus        88 ~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~gI~elf~~L~  167 (247)
T cd04143          88 EEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRALF  167 (247)
T ss_pred             HHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHH
Confidence            9999999988653         235789999999999976667777777777654 368899999999999999999999


Q ss_pred             HHH
Q 030225          151 KRL  153 (181)
Q Consensus       151 ~~~  153 (181)
                      ..+
T Consensus       168 ~~~  170 (247)
T cd04143         168 SLA  170 (247)
T ss_pred             HHh
Confidence            865

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

>cd01863 Rab18 Rab18 subfamily

Probab=100.00  E-value=2.7e-31  Score=179.65  Aligned_cols=151  Identities=40%  Similarity=0.731  Sum_probs=135.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus         9 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   88 (161)
T cd01863           9 SGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTF   88 (161)
T ss_pred             CCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEEECCCHHHH
Confidence            69999999999999988887889999888878788888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      +.+..|++.+.... ..+.|+++++||+|+.. .....++...+++..+++++++||++|.|++++++++++.
T Consensus        89 ~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~~~~  160 (161)
T cd01863          89 TNLETWLNELETYSTNNDIVKMLVGNKIDKEN-REVTREEGLKFARKHNMLFIETSAKTRDGVQQAFEELVEK  160 (161)
T ss_pred             HhHHHHHHHHHHhCCCCCCcEEEEEECCcccc-cccCHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHh
Confidence            99999999987764 36899999999999863 4556677888888899999999999999999999999875

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

>cd01892 Miro2 Miro2 subfamily

Probab=100.00  E-value=6.4e-32  Score=184.12  Aligned_cols=153  Identities=21%  Similarity=0.260  Sum_probs=132.3

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|||||||+++|+++.+. ..+.||++.++....+.+++..+.+.+||++|++.+..++..+++++|++++|||++++.+
T Consensus        13 ~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~llv~d~~~~~s   92 (169)
T cd01892          13 KGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVACLVYDSSDPKS   92 (169)
T ss_pred             CCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEEEEEEeCCCHHH
Confidence            699999999999999998 8888999988877778888888899999999999999899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           80 FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ++.+..|+..+...  .++|+++|+||+|+.+.......+...+++.+++ .++++||++++|++++|+.|++.+..
T Consensus        93 ~~~~~~~~~~~~~~--~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~~~  167 (169)
T cd01892          93 FSYCAEVYKKYFML--GEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSSNELFTKLATAAQY  167 (169)
T ss_pred             HHHHHHHHHHhccC--CCCeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCccHHHHHHHHHHHhhC
Confidence            99998888766332  4789999999999965554444456677777777 47999999999999999999998763

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.

>cd00154 Rab Rab family

Probab=100.00  E-value=3.2e-31  Score=178.27  Aligned_cols=150  Identities=51%  Similarity=0.875  Sum_probs=139.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||+..+...+..+++++|++++|+|+++++++
T Consensus         9 ~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~   88 (159)
T cd00154           9 SGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVYDITNRESF   88 (159)
T ss_pred             CCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEEECCCHHHH
Confidence            79999999999999999988889999999999999998889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      ..+..|+..+........|+++++||+|+........++...+....+.+++++||+++.|+++++++|.
T Consensus        89 ~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154          89 ENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             HHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHh
Confidence            9999999999887657899999999999975567778888888888899999999999999999999986

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=100.00  E-value=1.6e-31  Score=181.52  Aligned_cols=153  Identities=30%  Similarity=0.471  Sum_probs=131.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh-hhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER-YHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      ||||||||+++++...+...+.++.+..+ ...+.+++..+.+.+||+||+.. +...+..+++++|++|+|||++++++
T Consensus         8 ~~~GKtsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   86 (165)
T cd04146           8 SGVGKSALVVRFLTKRFIGEYDPNLESLY-SRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVYSITDRSS   86 (165)
T ss_pred             CCCcHHHHHHHHHhCccccccCCChHHhc-eEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEEECCCHHH
Confidence            69999999999999888777777765444 45567788889999999999885 34456778999999999999999999


Q ss_pred             HHHHHHHHHHHHHhC--CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCC-CCHHHHHHHHHHHHH
Q 030225           80 FERAKKWVQELQRQG--NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSA-HNVNELFYEIAKRLA  154 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~--~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~-~gi~~~~~~l~~~~~  154 (181)
                      |+.+..|+..+....  ..+.|+++++||+|+...+.+..+++..+++..+.+++++||+++ .|++++|++|++.+.
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~l~~~~~  164 (165)
T cd04146          87 FDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLASELGCLFFEVSAAEDYDGVHSVFHELCREVR  164 (165)
T ss_pred             HHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHHHcCCEEEEeCCCCCchhHHHHHHHHHHHHh
Confidence            999999998887753  357999999999999777777888888899888999999999999 599999999998764

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

>cd04177 RSR1 RSR1 subgroup

Probab=100.00  E-value=4e-31  Score=180.11  Aligned_cols=153  Identities=30%  Similarity=0.555  Sum_probs=135.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+...+.++++..+ ...+..++..+.+.+||+||++.|..++..++++++++++|||+++++++
T Consensus        10 ~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~~~~~~s~   88 (168)
T cd04177          10 GGVGKSALTVQFVQNVFIESYDPTIEDSY-RKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVTSEASL   88 (168)
T ss_pred             CCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEEECCCHHHH
Confidence            79999999999999999888888887544 56667888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|...+.... ..+.|+++++||.|+.+.+....+++..+++.++ ++++++||+++.|++++|++++..+.
T Consensus        89 ~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~i~~~~~  164 (168)
T cd04177          89 NELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQII  164 (168)
T ss_pred             HHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            99999998887632 3579999999999997777777777788888887 89999999999999999999997653

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=100.00  E-value=4.8e-31  Score=180.53  Aligned_cols=149  Identities=24%  Similarity=0.469  Sum_probs=129.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||++++.++.+...+.+|.. +.....+.+++..+++.+||+||++.+..++..+++++|++|+|||++++++|
T Consensus         9 ~~~GKtsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~d~~~~~sf   87 (173)
T cd04130           9 GAVGKTSLIVSYTTNGYPTEYVPTAF-DNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVNPSSF   87 (173)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCcee-eeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEEECCCHHHH
Confidence            69999999999999999888877764 44455677888889999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCcc------------cccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEE------------KRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~  146 (181)
                      +.+. .|+..+... .++.|+++++||+|+..            .+.+..+++..+++..+. .++++||++|.|++++|
T Consensus        88 ~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~~~~v~~lf  166 (173)
T cd04130          88 QNISEKWIPEIRKH-NPKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVF  166 (173)
T ss_pred             HHHHHHHHHHHHhh-CCCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHH
Confidence            9974 688888754 35789999999999853            356777888899998887 89999999999999999


Q ss_pred             HHHHH
Q 030225          147 YEIAK  151 (181)
Q Consensus       147 ~~l~~  151 (181)
                      +.++-
T Consensus       167 ~~~~~  171 (173)
T cd04130         167 DTAIL  171 (173)
T ss_pred             HHHHh
Confidence            98864

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,

>cd04114 Rab30 Rab30 subfamily

Probab=100.00  E-value=1.1e-30  Score=177.96  Aligned_cols=153  Identities=42%  Similarity=0.736  Sum_probs=136.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+.+.+.++++.++....+.+++..+.+.+||+||+..+...+..+++.+|++++|||+++++++
T Consensus        16 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   95 (169)
T cd04114          16 AGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESF   95 (169)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHH
Confidence            69999999999998888877888888888888888899889999999999999999889999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +.+..|+..+......+.|+++++||+|+...+++.......+.+....+++++||++|.|++++|++|.+.+
T Consensus        96 ~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~  168 (169)
T cd04114          96 RCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLACRL  168 (169)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHHHHHh
Confidence            9999999988776556799999999999977777777767777777778999999999999999999998754

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=100.00  E-value=5.8e-31  Score=177.38  Aligned_cols=145  Identities=20%  Similarity=0.374  Sum_probs=122.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++++.+.+.+.+.++ +..+ ...+.+++..+.+.+||++|++.     ..+++++|++++|||++++++|
T Consensus         9 ~gvGKTsli~~~~~~~f~~~~~~~-~~~~-~~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~d~~~~~sf   81 (158)
T cd04103           9 LQSGKSALVHRYLTGSYVQLESPE-GGRF-KKEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVFSLENEASF   81 (158)
T ss_pred             CCCcHHHHHHHHHhCCCCCCCCCC-ccce-EEEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEEECCCHHHH
Confidence            589999999999999887776554 3333 45678888889999999999964     3467889999999999999999


Q ss_pred             HHHHHHHHHHHHhCC-CCceEEEEEeCCCCc--ccccCCHHHHHHHHHHc-CCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGN-PNLIMFLVANKVDLE--EKRKVKNEEGELYAQEN-GLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~--~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      +++..|+..+..... .+.|+++++||.|+.  ..+++..+++.++++.. ++.|++|||++|.||+++|+++++.
T Consensus        82 ~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~~~~~  157 (158)
T cd04103          82 QTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQEAAQK  157 (158)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHHHHHhh
Confidence            999999999977643 678999999999985  35678888888888776 4899999999999999999999864

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.

>cd04148 RGK RGK subfamily

Probab=99.98  E-value=1e-30  Score=185.10  Aligned_cols=154  Identities=30%  Similarity=0.367  Sum_probs=132.1

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhcc-CCcEEEEEEECCChh
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR-GAAAAVVVYDITSMD   78 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~-~~d~~i~v~d~~~~~   78 (181)
                      +|||||||+++|..+.+. ..+.++.+.++....+.+++..+.+.+||++|++.  .....++. ++|++++|||++++.
T Consensus         9 ~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~--~~~~~~~~~~ad~iilV~d~td~~   86 (221)
T cd04148           9 PGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQEM--WTEDSCMQYQGDAFVVVYSVTDRS   86 (221)
T ss_pred             CCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcch--HHHhHHhhcCCCEEEEEEECCCHH
Confidence            699999999999988886 66767776567777788888899999999999972  23345666 999999999999999


Q ss_pred             HHHHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           79 SFERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        79 s~~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +|+.+..|+..+.... ..++|+++|+||+|+...+.+..+++..++..++++++++||+++.|++++|++|+..+..+
T Consensus        87 S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv~~l~~~l~~~~~~~  165 (221)
T cd04148          87 SFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAGLQHNVDELLEGIVRQIRLR  165 (221)
T ss_pred             HHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHhh
Confidence            9999999999887753 25799999999999987777777888888888899999999999999999999999988643

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

>cd04135 Tc10 TC10 subfamily

Probab=99.98  E-value=1.9e-30  Score=177.68  Aligned_cols=151  Identities=26%  Similarity=0.483  Sum_probs=130.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|+|||||+++|..+.+...+.++++..+ ...+.+++..+.+.+||++|++.+..++..+++++|++++|||++++++|
T Consensus         9 ~~~GKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~~~~~~~s~   87 (174)
T cd04135           9 GAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASF   87 (174)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCceeeee-EEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEEECCCHHHH
Confidence            69999999999999999888877776443 44567788888999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENGL-SFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~  146 (181)
                      +.+. .|+..+... .++.|+++++||+|+.+.            ..+..+++..+++..+. +++++||++|.|++++|
T Consensus        88 ~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~~f  166 (174)
T cd04135          88 QNVKEEWVPELKEY-APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALTQKGLKTVF  166 (174)
T ss_pred             HHHHHHHHHHHHhh-CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCcCCCHHHHH
Confidence            9885 677777655 578999999999998542            25667788888888885 79999999999999999


Q ss_pred             HHHHHHH
Q 030225          147 YEIAKRL  153 (181)
Q Consensus       147 ~~l~~~~  153 (181)
                      +.++..+
T Consensus       167 ~~~~~~~  173 (174)
T cd04135         167 DEAILAI  173 (174)
T ss_pred             HHHHHHh
Confidence            9998865

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

>PTZ00099 rab6; Provisional

Probab=99.98  E-value=6.8e-30  Score=174.69  Aligned_cols=144  Identities=46%  Similarity=0.722  Sum_probs=130.6

Q ss_pred             CCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhC
Q 030225           15 GQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQG   94 (181)
Q Consensus        15 ~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~   94 (181)
                      +.|.+.+.+|+|.++....+.+++..+++.||||+|++.+..++..+++++|++|+|||++++++|+.+..|+..+....
T Consensus         3 ~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~   82 (176)
T PTZ00099          3 DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNER   82 (176)
T ss_pred             CCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            45677888999999988888899999999999999999999999999999999999999999999999999999987765


Q ss_pred             CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           95 NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        95 ~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      ....|+++|+||+|+.+.+.+..+++..++..+++.++++||++|+||+++|++|++.+.+...
T Consensus        83 ~~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~~~  146 (176)
T PTZ00099         83 GKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNLDN  146 (176)
T ss_pred             CCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhccc
Confidence            5678999999999997767788888888888889999999999999999999999999877543

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.97  E-value=6.8e-30  Score=173.09  Aligned_cols=154  Identities=33%  Similarity=0.594  Sum_probs=134.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|....+...+.++++..+ ......++..+.+.+||+||+..+..++..+++.++++++|+|++++.++
T Consensus         9 ~~~GKTsl~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   87 (164)
T cd04139           9 GGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSITDMESF   87 (164)
T ss_pred             CCCCHHHHHHHHHhCCCccccCCcchhhE-EEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECCCHHHH
Confidence            79999999999999998887777776544 45567888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ..+..|+..+.... ..++|+++++||+|+.+.......+...+++.++++++++||++++|++++|+++.+.+.+
T Consensus        88 ~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  163 (164)
T cd04139          88 TATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAFYDLVREIRQ  163 (164)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHHHHHHHHHHh
Confidence            99999998887753 3579999999999997655566677778888888999999999999999999999987754

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.97  E-value=1.5e-31  Score=181.41  Aligned_cols=146  Identities=21%  Similarity=0.301  Sum_probs=121.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.||+|...    ..+++..+++.+||+||+..+..++..+++++|++++|||++++.++
T Consensus         8 ~~vGKTsli~~~~~~~~~~~~~pt~g~~~----~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t~~~s~   83 (164)
T cd04162           8 DGAGKTSLLHSLSSERSLESVVPTTGFNS----VAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSADSERL   83 (164)
T ss_pred             CCCCHHHHHHHHhcCCCcccccccCCcce----EEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHH
Confidence            68999999999999988888889988643    23455678899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCH----HHHHHHHHHcCCeEEEEecCC------CCCHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKN----EEGELYAQENGLSFLETSAKS------AHNVNELFYEIA  150 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~----~~~~~~~~~~~~~~~~~Sa~~------~~gi~~~~~~l~  150 (181)
                      ...+.|+..+.... +++|+++++||+|+...+.+..    .++..++++.++.++++||++      ++|++++|+.++
T Consensus        84 ~~~~~~l~~~~~~~-~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~~~~~~~~  162 (164)
T cd04162          84 PLARQELHQLLQHP-PDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAVKDLLSQLI  162 (164)
T ss_pred             HHHHHHHHHHHhCC-CCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHHHHHHHHHh
Confidence            99999988886553 6899999999999866543321    123455666778899999888      999999999986


Q ss_pred             H
Q 030225          151 K  151 (181)
Q Consensus       151 ~  151 (181)
                      .
T Consensus       163 ~  163 (164)
T cd04162         163 N  163 (164)
T ss_pred             c
Confidence            4

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.

>cd00876 Ras Ras family

Probab=99.97  E-value=6.1e-30  Score=172.59  Aligned_cols=151  Identities=36%  Similarity=0.615  Sum_probs=134.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|++..+...+.++.+ +.....+..++..+++.+||+||+..+..++..+++++|++++|||+++++++
T Consensus         8 ~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   86 (160)
T cd00876           8 GGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSITDRESF   86 (160)
T ss_pred             CCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEECCCHHHH
Confidence            69999999999999888888877776 55566677777789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC-CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      +.+..|+..+..... ..+|+++++||+|+........+++.+++..++.+++++||+++.|++++|++|++.
T Consensus        87 ~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~~~  159 (160)
T cd00876          87 EEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAKDNINIDEVFKLLVRE  159 (160)
T ss_pred             HHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccCCCCCHHHHHHHHHhh
Confidence            999999988877643 589999999999997767777788888888888999999999999999999999875

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.97  E-value=1.6e-29  Score=175.03  Aligned_cols=156  Identities=30%  Similarity=0.511  Sum_probs=130.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|+|||||+++|..+.+.+.+.++++..+. ..+.+++..+.+.+||++|++.+......++.++|+++++||+++.+++
T Consensus        10 ~g~GKStLl~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~~i~~~~s~   88 (187)
T cd04129          10 GACGKTSLLSVFTLGEFPEEYHPTVFENYV-TDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGFAVDTPDSL   88 (187)
T ss_pred             CCCCHHHHHHHHHhCCCCcccCCcccceEE-EEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEEECCCHHHH
Confidence            689999999999988887777777665543 3556778888999999999988887777788999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCcc----------cccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEE----------KRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYE  148 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~----------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~  148 (181)
                      +.+. .|+..+.... ++.|+++|+||+|+..          .+.+..+++..+++..+. +++++||++|.|++++|++
T Consensus        89 ~~~~~~~~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~  167 (187)
T cd04129          89 ENVRTKWIEEVRRYC-PNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGEGVDDVFEA  167 (187)
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCCCHHHHHHH
Confidence            9986 6888887654 5799999999999854          234555677888888885 8999999999999999999


Q ss_pred             HHHHHHhhCC
Q 030225          149 IAKRLAEVNP  158 (181)
Q Consensus       149 l~~~~~~~~~  158 (181)
                      +++.+....+
T Consensus       168 l~~~~~~~~~  177 (187)
T cd04129         168 ATRAALLVRK  177 (187)
T ss_pred             HHHHHhcccC
Confidence            9988766543

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).

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

Probab=99.97  E-value=5.4e-30  Score=177.11  Aligned_cols=155  Identities=36%  Similarity=0.611  Sum_probs=144.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||+|..++....+.+.|.||++ +.+.+.+.+++..+.+.|+||+|++++..+...++.++|++++||+++|..||
T Consensus        12 ~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~lVysitd~~SF   90 (196)
T KOG0395|consen   12 GGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLLVYSITDRSSF   90 (196)
T ss_pred             CCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEEEEECCCHHHH
Confidence            68999999999999999999999998 56677788889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..+++.+.+. .....|+++||||+|+...+.+..+++..++..++++++|+||+.+.+++++|..|+..+...
T Consensus        91 ~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~~F~~L~r~~~~~  167 (196)
T KOG0395|consen   91 EEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDEVFYELVREIRLP  167 (196)
T ss_pred             HHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHHHHHHHHHHHHhh
Confidence            9999999999553 336689999999999998899999999999999999999999999999999999999988873

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

Probab=99.97  E-value=2e-29  Score=173.48  Aligned_cols=157  Identities=33%  Similarity=0.509  Sum_probs=135.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.+..+...+.++.+..+ ...+..++..+.+.+||+||+..+..++..++..++++++|||+++..++
T Consensus        10 ~g~GKTtl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~   88 (180)
T cd04137          10 RSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSF   88 (180)
T ss_pred             CCCCHHHHHHHHHhCCCccccCcchhhhE-EEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECCCHHHH
Confidence            79999999999999988877777776544 45556777888999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+..|+..+.... ..+.|+++++||+|+...+.+...+...+++.++.+++++||+++.|+.++|++|.+.+...+.
T Consensus        89 ~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~~  167 (180)
T cd04137          89 EVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSARENENVEEAFELLIEEIEKVEN  167 (180)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhcC
Confidence            99999988887743 3578999999999997656666667777788888999999999999999999999998876643

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

>cd04149 Arf6 Arf6 subfamily

Probab=99.97  E-value=2.5e-30  Score=176.06  Aligned_cols=144  Identities=22%  Similarity=0.348  Sum_probs=115.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+.. +.||+|.++..  +.  ...+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        18 ~~~GKTsli~~l~~~~~~~-~~~t~g~~~~~--~~--~~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~t~~~s~   92 (168)
T cd04149          18 DAAGKTTILYKLKLGQSVT-TIPTVGFNVET--VT--YKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRI   92 (168)
T ss_pred             CCCCHHHHHHHHccCCCcc-ccCCcccceEE--EE--ECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCchhhH
Confidence            6999999999999877654 56888866542  22  3457899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHH-----cCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE-----NGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +++..|+..+... ...++|+++++||+|+.+.  +..+++..++..     ..+.++++||++|.|++++|+||.+
T Consensus        93 ~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~~~~~l~~  167 (168)
T cd04149          93 DEARQELHRIINDREMRDALLLVFANKQDLPDA--MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLSS  167 (168)
T ss_pred             HHHHHHHHHHhcCHhhcCCcEEEEEECcCCccC--CCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChHHHHHHHhc
Confidence            9998888777653 2357899999999998542  344555554321     2357899999999999999999964

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

>cd04158 ARD1 ARD1 subfamily

Probab=99.97  E-value=3.7e-30  Score=175.50  Aligned_cols=151  Identities=23%  Similarity=0.340  Sum_probs=121.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+.. +.+|++..+..    ++...+.+.+||+||+..+...+..+++++|++++|+|+++++++
T Consensus         8 ~~~GKTsl~~~l~~~~~~~-~~~T~~~~~~~----~~~~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~s~~~s~   82 (169)
T cd04158           8 DGAGKTTILFKLKQDEFMQ-PIPTIGFNVET----VEYKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDSSHRDRV   82 (169)
T ss_pred             CCCCHHHHHHHHhcCCCCC-cCCcCceeEEE----EEECCEEEEEEECCCChhcchHHHHHhccCCEEEEEEeCCcHHHH
Confidence            6899999999999887654 66887766532    233457889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC------CeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG------LSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~------~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +++..|+..+.... ..+.|+++++||+|+.+  .+..++...++...+      +.++++||++|.|++++|+||++.+
T Consensus        83 ~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f~~l~~~~  160 (169)
T cd04158          83 SEAHSELAKLLTEKELRDALLLIFANKQDVAG--ALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGLDWLSRQL  160 (169)
T ss_pred             HHHHHHHHHHhcChhhCCCCEEEEEeCcCccc--CCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHHHHHHHHH
Confidence            99999998887542 24689999999999854  345565655553222      3688999999999999999999887


Q ss_pred             HhhCC
Q 030225          154 AEVNP  158 (181)
Q Consensus       154 ~~~~~  158 (181)
                      .+..+
T Consensus       161 ~~~~~  165 (169)
T cd04158         161 VAAGV  165 (169)
T ss_pred             hhccc
Confidence            77644

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

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.97  E-value=2.2e-29  Score=172.51  Aligned_cols=151  Identities=33%  Similarity=0.545  Sum_probs=127.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++++..+. ..+.+++..+.+.+||++|++.+..++..++.++|++++|||++++++|
T Consensus        10 ~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~~~~~~s~   88 (175)
T cd01870          10 GACGKTCLLIVFSKDQFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSL   88 (175)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCccccceE-EEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEEECCCHHHH
Confidence            689999999999999998888888876654 3557788889999999999999998888899999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENGL-SFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~  146 (181)
                      +.+. .|+..+... ..+.|+++++||+|+...            ..+...++..++...+. .++++||++|.|++++|
T Consensus        89 ~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf  167 (175)
T cd01870          89 ENIPEKWTPEVKHF-CPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKTKEGVREVF  167 (175)
T ss_pred             HHHHHHHHHHHHhh-CCCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEeccccCcCHHHHH
Confidence            8885 577777654 357899999999998542            23445677777777764 89999999999999999


Q ss_pred             HHHHHHH
Q 030225          147 YEIAKRL  153 (181)
Q Consensus       147 ~~l~~~~  153 (181)
                      ++|++.+
T Consensus       168 ~~l~~~~  174 (175)
T cd01870         168 EMATRAA  174 (175)
T ss_pred             HHHHHHh
Confidence            9998764

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.97  E-value=1.3e-29  Score=176.86  Aligned_cols=157  Identities=25%  Similarity=0.379  Sum_probs=129.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+.+.+...+.++++ +.....+.+.+..+.+.+||+||+..+..++..++.++|++|+|||++++.++
T Consensus         8 ~~vGKTsll~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~~~~~s~   86 (198)
T cd04147           8 AGVGKTALIQRFLYDTFEPKYRRTVE-EMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAVDDPESF   86 (198)
T ss_pred             CCCCHHHHHHHHHhCCCCccCCCchh-hheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEECCCHHHH
Confidence            69999999999999998887777765 34455677788888999999999999998889999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC-CCceEEEEEeCCCCcc-cccCCHHHHHHHHH-HcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGN-PNLIMFLVANKVDLEE-KRKVKNEEGELYAQ-ENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~-~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +.+..|+..+..... .++|+++++||+|+.. ...+...+...... ..+.+++++||++|.|++++|++|++.+....
T Consensus        87 ~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~  166 (198)
T cd04147          87 EEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVFKELLRQANLPY  166 (198)
T ss_pred             HHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHHHHHHHHhhccc
Confidence            999999988877543 5799999999999865 34444444444333 45678999999999999999999999876543


Q ss_pred             C
Q 030225          158 P  158 (181)
Q Consensus       158 ~  158 (181)
                      .
T Consensus       167 ~  167 (198)
T cd04147         167 N  167 (198)
T ss_pred             c
Confidence            3

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.

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=5.6e-30  Score=176.24  Aligned_cols=149  Identities=20%  Similarity=0.290  Sum_probs=116.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+.. +.||+|.++.  .+  +...+.+.+||+||++.+..+|..+++++|++|+|||+++++++
T Consensus        26 ~~~GKTsl~~~l~~~~~~~-~~pt~g~~~~--~~--~~~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~V~D~s~~~s~  100 (181)
T PLN00223         26 DAAGKTTILYKLKLGEIVT-TIPTIGFNVE--TV--EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRV  100 (181)
T ss_pred             CCCCHHHHHHHHccCCCcc-ccCCcceeEE--EE--EECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCcHHHH
Confidence            6899999999999877764 5688886553  22  33457899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHHc-----CCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQEN-----GLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      .++..++..+... ..++.|+++++||+|+.+..  ..++....+.-.     .+.++++||++|+|+.++|+||.+.+.
T Consensus       101 ~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~~  178 (181)
T PLN00223        101 VEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIA  178 (181)
T ss_pred             HHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCCC--CHHHHHHHhCccccCCCceEEEeccCCCCCCHHHHHHHHHHHHh
Confidence            9988887777542 23578999999999985532  233333322111     124668999999999999999998876


Q ss_pred             hh
Q 030225          155 EV  156 (181)
Q Consensus       155 ~~  156 (181)
                      ++
T Consensus       179 ~~  180 (181)
T PLN00223        179 NK  180 (181)
T ss_pred             hc
Confidence            54

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

Probab=99.97  E-value=2.5e-30  Score=177.23  Aligned_cols=146  Identities=23%  Similarity=0.343  Sum_probs=114.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+. .+.||++.++..  ...  ..+++.+||+||+..+..++..+++++|++|+|||+++++++
T Consensus        22 ~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~~--~~~--~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v~D~t~~~s~   96 (175)
T smart00177       22 DAAGKTTILYKLKLGESV-TTIPTIGFNVET--VTY--KNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRI   96 (175)
T ss_pred             CCCCHHHHHHHHhcCCCC-CcCCccccceEE--EEE--CCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECCCHHHH
Confidence            699999999999877774 466888866543  223  457899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHH-----HHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYA-----QENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      ++...|+..+... ...+.|+++++||+|+.+..  ..++.....     +...+.++++||++|+|+.++|+||.+.+
T Consensus        97 ~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~  173 (175)
T smart00177       97 DEAREELHRMLNEDELRDAVILVFANKQDLPDAM--KAAEITEKLGLHSIRDRNWYIQPTCATSGDGLYEGLTWLSNNL  173 (175)
T ss_pred             HHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCC--CHHHHHHHhCccccCCCcEEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            9998888887653 23578999999999985432  222322221     12234577899999999999999998764

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).

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.97  E-value=6.5e-30  Score=176.37  Aligned_cols=156  Identities=24%  Similarity=0.304  Sum_probs=123.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEE-CCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSL-NEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|||||||++++..+.+... .+|+|.+.....+.. ++..+.+.+||++|++.+..++..+++++|++++|+|++++++
T Consensus        12 ~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~   90 (183)
T cd04152          12 DSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVFVVDSVDVER   90 (183)
T ss_pred             CCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEEEEECCCHHH
Confidence            69999999999998887654 578777665555544 4466889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHH--H----cCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           80 FERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQ--E----NGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        80 ~~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~--~----~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      ++.+..|+..+... ...+.|+++++||+|+.+.  ...++...+..  .    .+++++++||++++|+++++++|.+.
T Consensus        91 ~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~l~~~  168 (183)
T cd04152          91 MEEAKTELHKITRFSENQGVPVLVLANKQDLPNA--LSVSEVEKLLALHELSASTPWHVQPACAIIGEGLQEGLEKLYEM  168 (183)
T ss_pred             HHHHHHHHHHHHhhhhcCCCcEEEEEECcCcccc--CCHHHHHHHhCccccCCCCceEEEEeecccCCCHHHHHHHHHHH
Confidence            99988888877653 2357899999999998542  33333333332  1    12468999999999999999999998


Q ss_pred             HHhhCCC
Q 030225          153 LAEVNPS  159 (181)
Q Consensus       153 ~~~~~~~  159 (181)
                      +.+.++.
T Consensus       169 l~~~~~~  175 (183)
T cd04152         169 ILKRRKM  175 (183)
T ss_pred             HHHHHhh
Confidence            8766553

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.97  E-value=2.3e-30  Score=174.79  Aligned_cols=144  Identities=20%  Similarity=0.335  Sum_probs=112.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+.. +.||+|..+.  .+..  ..+.+.+||+||++.+..++..+++++|++|||||++++.++
T Consensus         9 ~~~GKTsli~~l~~~~~~~-~~pt~g~~~~--~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~   83 (159)
T cd04150           9 DAAGKTTILYKLKLGEIVT-TIPTIGFNVE--TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERI   83 (159)
T ss_pred             CCCCHHHHHHHHhcCCCcc-cCCCCCcceE--EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHH
Confidence            6899999999998887764 6788886553  2223  457889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHH-HHHH----HHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG-ELYA----QENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~-~~~~----~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +++..|+..+... ...++|+++++||+|+.+..  ..++. ..+.    ..+++.++++||++|+|++++|+||.+
T Consensus        84 ~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~~~l~~  158 (159)
T cd04150          84 GEAREELQRMLNEDELRDAVLLVFANKQDLPNAM--SAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGLDWLSN  158 (159)
T ss_pred             HHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCCC--CHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHHHHHhc
Confidence            9998888777543 23568999999999985422  22222 2221    122346789999999999999999964

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=7.3e-30  Score=175.86  Aligned_cols=150  Identities=19%  Similarity=0.316  Sum_probs=116.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||++++..+.+.. +.||++.++..  +  +...+.+.+||+||++.++.++..+++++|++|+|+|+++++++
T Consensus        26 ~~vGKTsli~~~~~~~~~~-~~~T~~~~~~~--~--~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v~D~t~~~s~  100 (182)
T PTZ00133         26 DAAGKTTILYKLKLGEVVT-TIPTIGFNVET--V--EYKNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDRERI  100 (182)
T ss_pred             CCCCHHHHHHHHhcCCccc-cCCccccceEE--E--EECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHH
Confidence            6899999999998877765 56888866532  2  23557899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHH-----HHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYA-----QENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      ++...++..+... ...++|+++++||.|+.+.  ...++.....     ....+.++++||++|.|++++|+||.+.+.
T Consensus       101 ~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv~e~~~~l~~~i~  178 (182)
T PTZ00133        101 GDAREELERMLSEDELRDAVLLVFANKQDLPNA--MSTTEVTEKLGLHSVRQRNWYIQGCCATTAQGLYEGLDWLSANIK  178 (182)
T ss_pred             HHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCC--CCHHHHHHHhCCCcccCCcEEEEeeeCCCCCCHHHHHHHHHHHHH
Confidence            9988887777542 2356899999999998542  2223322221     112245779999999999999999998877


Q ss_pred             hhC
Q 030225          155 EVN  157 (181)
Q Consensus       155 ~~~  157 (181)
                      ++.
T Consensus       179 ~~~  181 (182)
T PTZ00133        179 KSM  181 (182)
T ss_pred             Hhc
Confidence            653

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

Probab=99.97  E-value=1.2e-29  Score=172.01  Aligned_cols=156  Identities=29%  Similarity=0.515  Sum_probs=140.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEE-CCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSL-NEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      .++|||+|+..+..+.|+..|.||+.. -+...+.+ ++..+.+.+|||.|+++|..+++..+.++|++++||++.++.|
T Consensus        13 ga~GKT~ll~~~t~~~fp~~yvPTVFd-nys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl~cfsv~~p~S   91 (198)
T KOG0393|consen   13 GAVGKTCLLISYTTNAFPEEYVPTVFD-NYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFLLCFSVVSPES   91 (198)
T ss_pred             CCcCceEEEEEeccCcCcccccCeEEc-cceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEEEEEEEcCChhh
Confidence            479999999999999999999999984 44556677 5999999999999999999999899999999999999999999


Q ss_pred             HHHH-HHHHHHHHHhCCCCceEEEEEeCCCCcc------------cccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHH
Q 030225           80 FERA-KKWVQELQRQGNPNLIMFLVANKVDLEE------------KRKVKNEEGELYAQENG-LSFLETSAKSAHNVNEL  145 (181)
Q Consensus        80 ~~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~  145 (181)
                      |+++ .+|+.++..++ ++.|+++||+|.||.+            ...+..+++...+++.| ..|+||||++..|++++
T Consensus        92 ~~nv~~kW~pEi~~~c-p~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~EcSa~tq~~v~~v  170 (198)
T KOG0393|consen   92 FENVKSKWIPEIKHHC-PNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLECSALTQKGVKEV  170 (198)
T ss_pred             HHHHHhhhhHHHHhhC-CCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeeehhhhhCCcHHH
Confidence            9995 78999999887 8999999999999963            24688889999999999 67999999999999999


Q ss_pred             HHHHHHHHHhhCC
Q 030225          146 FYEIAKRLAEVNP  158 (181)
Q Consensus       146 ~~~l~~~~~~~~~  158 (181)
                      |+..+..+....+
T Consensus       171 F~~a~~~~l~~~~  183 (198)
T KOG0393|consen  171 FDEAIRAALRPPQ  183 (198)
T ss_pred             HHHHHHHHhcccc
Confidence            9999998887654

>cd00157 Rho Rho (Ras homology) family

Probab=99.97  E-value=2.5e-28  Score=166.60  Aligned_cols=149  Identities=32%  Similarity=0.600  Sum_probs=125.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++.... .......++..+.+.+||+||++.+......+++.+|++++|||++++.++
T Consensus         9 ~~~GKSsli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   87 (171)
T cd00157           9 GAVGKTCLLISYTTGKFPTEYVPTVFDN-YSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVDSPSSF   87 (171)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCceeee-eEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEEECCCHHHH
Confidence            6999999999999999877777776543 345567788889999999999998888888889999999999999999998


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCcccc-----------cCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR-----------KVKNEEGELYAQENGL-SFLETSAKSAHNVNELFY  147 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~~-----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~  147 (181)
                      .... .|+..+.... .+.|+++++||+|+.+..           .+..+++..+...+++ +++++||++|.|++++|+
T Consensus        88 ~~~~~~~~~~~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  166 (171)
T cd00157          88 ENVKTKWIPEIRHYC-PNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQEGVKEVFE  166 (171)
T ss_pred             HHHHHHHHHHHHhhC-CCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCCCCHHHHHH
Confidence            8864 5777776654 589999999999986543           3356677788888887 999999999999999999


Q ss_pred             HHHH
Q 030225          148 EIAK  151 (181)
Q Consensus       148 ~l~~  151 (181)
                      +|++
T Consensus       167 ~i~~  170 (171)
T cd00157         167 EAIR  170 (171)
T ss_pred             HHhh
Confidence            9875

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

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.96  E-value=6.5e-28  Score=170.41  Aligned_cols=154  Identities=32%  Similarity=0.533  Sum_probs=135.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++++.+.+...+.+|++.++....+..+++.+.+.+||++|+..+..++..++.+++++++|||+++..++
T Consensus        18 ~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   97 (215)
T PTZ00132         18 GGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITY   97 (215)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCCEEEEEEECcCHHHH
Confidence            69999999999999999888999999999888888889999999999999999998999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ..+..|+..+.... .+.|+++++||+|+.+ ..... +...++...++.++++||++|.|++++|.+|++.+....
T Consensus        98 ~~~~~~~~~i~~~~-~~~~i~lv~nK~Dl~~-~~~~~-~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~ia~~l~~~p  171 (215)
T PTZ00132         98 KNVPNWHRDIVRVC-ENIPIVLVGNKVDVKD-RQVKA-RQITFHRKKNLQYYDISAKSNYNFEKPFLWLARRLTNDP  171 (215)
T ss_pred             HHHHHHHHHHHHhC-CCCCEEEEEECccCcc-ccCCH-HHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHhhcc
Confidence            99999999987654 5789999999999854 23333 334567778899999999999999999999999887653

>cd04154 Arl2 Arl2 subfamily

Probab=99.96  E-value=8.9e-29  Score=169.29  Aligned_cols=144  Identities=20%  Similarity=0.273  Sum_probs=114.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+ ..+.+|+|..+.  .+..+  .+++.+||+||++.++.++..+++++|++++|||++++.++
T Consensus        23 ~~~GKTsL~~~l~~~~~-~~~~~t~g~~~~--~~~~~--~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   97 (173)
T cd04154          23 DNAGKTTILKKLLGEDI-DTISPTLGFQIK--TLEYE--GYKLNIWDVGGQKTLRPYWRNYFESTDALIWVVDSSDRLRL   97 (173)
T ss_pred             CCCCHHHHHHHHccCCC-CCcCCccccceE--EEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCCHHHH
Confidence            69999999999998754 445677775443  33344  47889999999999888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHH-----HcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQ-----ENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      .+...|+..+... ...+.|+++++||+|+.+..  ..++...+++     ..+++++++||++|.|++++|++|++
T Consensus        98 ~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~  172 (173)
T cd04154          98 DDCKRELKELLQEERLAGATLLILANKQDLPGAL--SEEEIREALELDKISSHHWRIQPCSAVTGEGLLQGIDWLVD  172 (173)
T ss_pred             HHHHHHHHHHHhChhhcCCCEEEEEECcccccCC--CHHHHHHHhCccccCCCceEEEeccCCCCcCHHHHHHHHhc
Confidence            9988888877543 23679999999999986532  3344444432     24578999999999999999999864

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.96  E-value=4.1e-29  Score=170.03  Aligned_cols=146  Identities=23%  Similarity=0.188  Sum_probs=114.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+. +...+.||+|....  .+..  ..+.+.+||+||+..+..++..+++++|++|+|||++++.++
T Consensus         8 ~~~GKTsl~~~l~~~-~~~~~~~t~g~~~~--~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~s~~~s~   82 (167)
T cd04161           8 DNAGKTTLVSALQGE-IPKKVAPTVGFTPT--KLRL--DKYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDSSDDDRV   82 (167)
T ss_pred             CCCCHHHHHHHHhCC-CCccccCcccceEE--EEEE--CCEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEECCchhHH
Confidence            689999999999976 66677788886533  3333  457889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHH-H---HHHHHHHc--CCeEEEEecCCC------CCHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNE-E---GELYAQEN--GLSFLETSAKSA------HNVNELFY  147 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~-~---~~~~~~~~--~~~~~~~Sa~~~------~gi~~~~~  147 (181)
                      +++..|+..+.... ..++|+++++||+|+.+.+..... +   ...++++.  .+.++++||++|      .|+.+.|+
T Consensus        83 ~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~g~~~~~~  162 (167)
T cd04161          83 QEVKEILRELLQHPRVSGKPILVLANKQDKKNALLGADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDPSIVEGLR  162 (167)
T ss_pred             HHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCCHHHHHHhcCcccccCCCCceEEEEEeEceeCCCCccccCHHHHHH
Confidence            99999999887643 257899999999998654321111 1   11223222  256788999998      89999999


Q ss_pred             HHHH
Q 030225          148 EIAK  151 (181)
Q Consensus       148 ~l~~  151 (181)
                      ||..
T Consensus       163 wl~~  166 (167)
T cd04161         163 WLLA  166 (167)
T ss_pred             HHhc
Confidence            9975

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.

>cd04157 Arl6 Arl6 subfamily

Probab=99.96  E-value=6.2e-29  Score=168.15  Aligned_cols=145  Identities=17%  Similarity=0.240  Sum_probs=112.9

Q ss_pred             CCCchhHHHHHHhhCCC-CCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQF-FDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      ||||||||+++|.+... ...+.||+|..+..    +....+++.+||+||+..+..++..+++++|++|+|+|++++.+
T Consensus         8 ~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~~----~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~   83 (162)
T cd04157           8 DNSGKTTIINQLKPENAQSQIIVPTVGFNVES----FEKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDRLR   83 (162)
T ss_pred             CCCCHHHHHHHHcccCCCcceecCccccceEE----EEECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeCCcHHH
Confidence            69999999999998763 55677888755432    22346788999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhC---CCCceEEEEEeCCCCcccccCCHHHHHHHHH-----HcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           80 FERAKKWVQELQRQG---NPNLIMFLVANKVDLEEKRKVKNEEGELYAQ-----ENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~---~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +..+..|+..+....   ..+.|+++++||+|+.+..  ...+......     ...+.++++||++|+|++++|+||.+
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~--~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~~~~~l~~  161 (162)
T cd04157          84 LVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDAL--TAVKITQLLGLENIKDKPWHIFASNALTGEGLDEGVQWLQA  161 (162)
T ss_pred             HHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCC--CHHHHHHHhCCccccCceEEEEEeeCCCCCchHHHHHHHhc
Confidence            998888888876532   2579999999999986432  2222222111     12346899999999999999999965

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.96  E-value=4.7e-28  Score=168.52  Aligned_cols=140  Identities=19%  Similarity=0.346  Sum_probs=118.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEEC-----CeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN-----EVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDIT   75 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~-----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   75 (181)
                      +|||||||+++|.++.+...+.+|+|.++....+.++     +..+.+.+||++|++.|..++..+++++|++|+|||++
T Consensus         9 ~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~iIlVyDvt   88 (202)
T cd04102           9 SGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNGIILVHDLT   88 (202)
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCEEEEEEECc
Confidence            5899999999999999999899999988777766664     56789999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhC-------------------CCCceEEEEEeCCCCcccccCCHHH----HHHHHHHcCCeEE
Q 030225           76 SMDSFERAKKWVQELQRQG-------------------NPNLIMFLVANKVDLEEKRKVKNEE----GELYAQENGLSFL  132 (181)
Q Consensus        76 ~~~s~~~~~~~~~~~~~~~-------------------~~~~p~ivi~nK~D~~~~~~~~~~~----~~~~~~~~~~~~~  132 (181)
                      ++++|+.+..|+..+....                   ..+.|+++||||.|+.+.+.+....    ...++.+.+++.+
T Consensus        89 n~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~~~~~~~~~~~~~ia~~~~~~~i  168 (202)
T cd04102          89 NRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKESSGNLVLTARGFVAEQGNAEEI  168 (202)
T ss_pred             ChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcccchHHHhhHhhhHHHhcCCceE
Confidence            9999999999999997631                   2468999999999997655544443    3456777899998


Q ss_pred             EEecCCCC
Q 030225          133 ETSAKSAH  140 (181)
Q Consensus       133 ~~Sa~~~~  140 (181)
                      +.++.++.
T Consensus       169 ~~~c~~~~  176 (202)
T cd04102         169 NLNCTNGR  176 (202)
T ss_pred             EEecCCcc
Confidence            88888653

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.

>cd01893 Miro1 Miro1 subfamily

Probab=99.96  E-value=1e-27  Score=162.95  Aligned_cols=152  Identities=26%  Similarity=0.356  Sum_probs=118.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++. ..+ .....+++..+++.+||+||...+...+..++..+|++++|||++++.++
T Consensus         9 ~~vGKTsl~~~l~~~~~~~~~~~~~-~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~   86 (166)
T cd01893           9 EGVGKSSLIMSLVSEEFPENVPRVL-PEI-TIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTL   86 (166)
T ss_pred             CCCCHHHHHHHHHhCcCCccCCCcc-cce-EeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCCHHHH
Confidence            6899999999999999876654332 222 33445667788999999999988877777888999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCcccccC--CHHHHHHHHHHcC--CeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRKV--KNEEGELYAQENG--LSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~--~~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+. .|+..+.... .+.|+++++||+|+.+....  ..++...++..++  .+++++||+++.|++++|+.+...+..
T Consensus        87 ~~~~~~~~~~i~~~~-~~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~~~~~~~~  165 (166)
T cd01893          87 ERIRTKWLPLIRRLG-VKVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFYYAQKAVLH  165 (166)
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHHHHHHHhcC
Confidence            9975 6877776654 58999999999999654432  1233333333332  379999999999999999999887653

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.96  E-value=6e-28  Score=165.33  Aligned_cols=144  Identities=23%  Similarity=0.342  Sum_probs=113.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|..+.+.. +.++++.++..  +..  ..+++.+||+||+..+...+..+++++|++++|+|+++++++
T Consensus        24 ~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~~--~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V~D~s~~~~~   98 (174)
T cd04153          24 DNAGKTTILYQFLLGEVVH-TSPTIGSNVEE--IVY--KNIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERL   98 (174)
T ss_pred             CCCCHHHHHHHHccCCCCC-cCCccccceEE--EEE--CCeEEEEEECCCCHHHHHHHHHHhhcCCEEEEEEECCCHHHH
Confidence            6999999999999888765 45777765532  233  357889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHH-HH----HHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGEL-YA----QENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~-~~----~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      .....++..+.... ..+.|+++++||+|+.+.  ...++... +.    +..+++++++||++|+|++++|+||.+
T Consensus        99 ~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~~~~l~~  173 (174)
T cd04153          99 PLTKEELYKMLAHEDLRKAVLLVLANKQDLKGA--MTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPEGLDWIAS  173 (174)
T ss_pred             HHHHHHHHHHHhchhhcCCCEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEecccCCCCCHHHHHHHHhc
Confidence            88888777775532 357899999999998542  22333222 21    234567999999999999999999964

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.96  E-value=4.5e-28  Score=163.70  Aligned_cols=145  Identities=21%  Similarity=0.330  Sum_probs=113.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.+..+.. ..+|++.++..  +.. ...+.+.+||+||+..+...+..++.++|++++|+|++++.++
T Consensus         8 ~~~GKTsl~~~~~~~~~~~-~~~t~~~~~~~--~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~~~~~~~   83 (160)
T cd04156           8 DSAGKSTLLYKLKHAELVT-TIPTVGFNVEM--LQL-EKHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDEARL   83 (160)
T ss_pred             CCCCHHHHHHHHhcCCccc-ccCccCcceEE--EEe-CCceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCcHHHH
Confidence            6999999999999988765 45777755433  333 2457899999999999998899999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHH------HHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELY------AQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~------~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      ..+..|+..+.... ..+.|+++++||+|+....  ...+....      ....+++++++||++|+|++++|++|.+
T Consensus        84 ~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~i~~  159 (160)
T cd04156          84 DESQKELKHILKNEHIKGVPVVLLANKQDLPGAL--TAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAFRKLAS  159 (160)
T ss_pred             HHHHHHHHHHHhchhhcCCCEEEEEECcccccCc--CHHHHHHHcCCcccCCCCcEEEEecccccCCChHHHHHHHhc
Confidence            99888888876532 2579999999999985321  22222221      2223457899999999999999999864

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

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

Probab=99.96  E-value=1.8e-27  Score=162.95  Aligned_cols=146  Identities=27%  Similarity=0.433  Sum_probs=116.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||++++..+.... ..||.|...  ..+.++  ++.+.+||.+|+..++..|+.|+.++|++|||+|.+|.+.+
T Consensus        23 ~~sGKTtll~~l~~~~~~~-~~pT~g~~~--~~i~~~--~~~~~~~d~gG~~~~~~~w~~y~~~~~~iIfVvDssd~~~l   97 (175)
T PF00025_consen   23 DGSGKTTLLNRLKNGEISE-TIPTIGFNI--EEIKYK--GYSLTIWDLGGQESFRPLWKSYFQNADGIIFVVDSSDPERL   97 (175)
T ss_dssp             TTSSHHHHHHHHHSSSEEE-EEEESSEEE--EEEEET--TEEEEEEEESSSGGGGGGGGGGHTTESEEEEEEETTGGGGH
T ss_pred             CccchHHHHHHhhhccccc-cCccccccc--ceeeeC--cEEEEEEeccccccccccceeeccccceeEEEEecccceee
Confidence            5899999999999776544 567877554  334444  45788999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHH------HcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQ------ENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~------~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      .+....+..+... ...+.|+++++||+|+.+.  ...++......      ...+.++.+||.+|+|+.+.++||.+++
T Consensus        98 ~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~--~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv~e~l~WL~~~~  175 (175)
T PF00025_consen   98 QEAKEELKELLNDPELKDIPILILANKQDLPDA--MSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEGVDEGLEWLIEQI  175 (175)
T ss_dssp             HHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTS--STHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBTHHHHHHHHHHHH
T ss_pred             cccccchhhhcchhhcccceEEEEeccccccCc--chhhHHHhhhhhhhcccCCceEEEeeeccCCcCHHHHHHHHHhcC
Confidence            9998888887664 2367999999999998553  33344443222      2345689999999999999999999865

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 ....

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

Probab=99.96  E-value=3.1e-27  Score=153.08  Aligned_cols=151  Identities=21%  Similarity=0.251  Sum_probs=120.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      .||||||++++|.+.. .....||.|..+.+..    ...+++++||++|+...+..|++||..+|++|+|+|.+|+..+
T Consensus        25 dNsGKTti~~kl~~~~-~~~i~pt~gf~Iktl~----~~~~~L~iwDvGGq~~lr~~W~nYfestdglIwvvDssD~~r~   99 (185)
T KOG0073|consen   25 DNSGKTTIVKKLLGED-TDTISPTLGFQIKTLE----YKGYTLNIWDVGGQKTLRSYWKNYFESTDGLIWVVDSSDRMRM   99 (185)
T ss_pred             CCCCchhHHHHhcCCC-ccccCCccceeeEEEE----ecceEEEEEEcCCcchhHHHHHHhhhccCeEEEEEECchHHHH
Confidence            4899999999999877 4556688886554433    3557899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHH-hCCCCceEEEEEeCCCCccccc---CCHH-HHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRK---VKNE-EGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~-~~~~~~p~ivi~nK~D~~~~~~---~~~~-~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ++....+..+.. ....+.|+++++||.|+...-.   +.+. ....+++...++++.|||.+|+++.+.++||++.+.+
T Consensus       100 ~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~~i~~~~~L~~l~ks~~~~l~~cs~~tge~l~~gidWL~~~l~~  179 (185)
T KOG0073|consen  100 QECKQELTELLVEERLAGAPLLVLANKQDLPGALSLEEISKALDLEELAKSHHWRLVKCSAVTGEDLLEGIDWLCDDLMS  179 (185)
T ss_pred             HHHHHHHHHHHhhhhhcCCceEEEEecCcCccccCHHHHHHhhCHHHhccccCceEEEEeccccccHHHHHHHHHHHHHH
Confidence            988777777654 2235689999999999864221   1111 1234456678999999999999999999999998877


Q ss_pred             h
Q 030225          156 V  156 (181)
Q Consensus       156 ~  156 (181)
                      +
T Consensus       180 r  180 (185)
T KOG0073|consen  180 R  180 (185)
T ss_pred             H
Confidence            4

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.95  E-value=2.5e-27  Score=161.13  Aligned_cols=145  Identities=25%  Similarity=0.296  Sum_probs=111.5

Q ss_pred             CCCchhHHHHHHhhCCC------CCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEEC
Q 030225            1 MGTGKTSLVLRFVKGQF------FDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDI   74 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~------~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~   74 (181)
                      +|||||||+++|.+...      ...+.+|++..+..  +.++  ...+.+||+||+..+..++..+++.+|++++|+|+
T Consensus         8 ~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~--~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~vvd~   83 (167)
T cd04160           8 DNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGT--IEVG--NARLKFWDLGGQESLRSLWDKYYAECHAIIYVIDS   83 (167)
T ss_pred             CCCCHHHHHHHHhhhcccccCCcccccCCccccceEE--EEEC--CEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEEC
Confidence            69999999999986432      22344566655432  3333  56889999999999999999999999999999999


Q ss_pred             CChhHHHHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHH-------cCCeEEEEecCCCCCHHHHH
Q 030225           75 TSMDSFERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQE-------NGLSFLETSAKSAHNVNELF  146 (181)
Q Consensus        75 ~~~~s~~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~-------~~~~~~~~Sa~~~~gi~~~~  146 (181)
                      ++++++.....|+..+.... ..+.|+++++||+|+...  ....+...+...       .+++++++||++|+|+++++
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~  161 (167)
T cd04160          84 TDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDA--LSVEEIKEVFQDKAEEIGRRDCLVLPVSALEGTGVREGI  161 (167)
T ss_pred             chHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccC--CCHHHHHHHhccccccccCCceEEEEeeCCCCcCHHHHH
Confidence            99999998888888876632 357899999999998543  233344443322       24689999999999999999


Q ss_pred             HHHHH
Q 030225          147 YEIAK  151 (181)
Q Consensus       147 ~~l~~  151 (181)
                      +||.+
T Consensus       162 ~~l~~  166 (167)
T cd04160         162 EWLVE  166 (167)
T ss_pred             HHHhc
Confidence            99965

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.

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

Probab=99.95  E-value=7.3e-30  Score=167.74  Aligned_cols=157  Identities=31%  Similarity=0.511  Sum_probs=148.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      .++||||+|+++|.+-|...|..++|+++....+.+.+..++..+||++|+++|..+..+|++++.+-++||+-+|..||
T Consensus        29 g~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyyrgaqa~vLVFSTTDr~SF  108 (246)
T KOG4252|consen   29 GSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYYRGAQASVLVFSTTDRYSF  108 (246)
T ss_pred             CccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHhccccceEEEEecccHHHH
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+..|.+.+.... ..+|.++|-||+|+.+...+...+++.+++..++.++.+|++...|+.++|.+|++.+.+...
T Consensus       109 ea~~~w~~kv~~e~-~~IPtV~vqNKIDlveds~~~~~evE~lak~l~~RlyRtSvked~NV~~vF~YLaeK~~q~~k  185 (246)
T KOG4252|consen  109 EATLEWYNKVQKET-ERIPTVFVQNKIDLVEDSQMDKGEVEGLAKKLHKRLYRTSVKEDFNVMHVFAYLAEKLTQQKK  185 (246)
T ss_pred             HHHHHHHHHHHHHh-ccCCeEEeeccchhhHhhhcchHHHHHHHHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHH
Confidence            99999999998765 689999999999999999999999999999999999999999999999999999998887644

>cd04151 Arl1 Arl1 subfamily

Probab=99.95  E-value=5.8e-28  Score=162.93  Aligned_cols=144  Identities=23%  Similarity=0.314  Sum_probs=109.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+.. +.+|++.++.  .+  ++..+.+.+||+||+..+..++..+++.+|++++|+|++++.++
T Consensus         8 ~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~--~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~~~   82 (158)
T cd04151           8 DNAGKTTILYRLQLGEVVT-TIPTIGFNVE--TV--TYKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRDRL   82 (158)
T ss_pred             CCCCHHHHHHHHccCCCcC-cCCccCcCeE--EE--EECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECCCHHHH
Confidence            6899999999998877654 4577765543  22  23457889999999999999999999999999999999999888


Q ss_pred             HHHHHHHHHHHH-hCCCCceEEEEEeCCCCcccccCCHHHHHHHHH-----HcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           81 ERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQ-----ENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        81 ~~~~~~~~~~~~-~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      .....++..+.. ....++|+++++||+|+.+..  ...+......     ..+.+++++||+++.|++++|++|++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  157 (158)
T cd04151          83 GTAKEELHAMLEEEELKGAVLLVFANKQDMPGAL--SEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMDWLVN  157 (158)
T ss_pred             HHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCC--CHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHHHHhc
Confidence            877666665543 223578999999999985432  2222222111     12357999999999999999999964

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

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

Probab=99.95  E-value=5.8e-28  Score=160.12  Aligned_cols=150  Identities=23%  Similarity=0.323  Sum_probs=122.8

Q ss_pred             CCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHH
Q 030225            2 GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFE   81 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   81 (181)
                      |+||||++++|..++...+ .||+|..+....    ..+++|.+||++|+..++.+|+.|+.+.+++|||+|.+|++.+.
T Consensus        27 ~AGKTTILykLk~~E~vtt-vPTiGfnVE~v~----ykn~~f~vWDvGGq~k~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~  101 (181)
T KOG0070|consen   27 AAGKTTILYKLKLGEIVTT-VPTIGFNVETVE----YKNISFTVWDVGGQEKLRPLWKHYFQNTQGLIFVVDSSDRERIE  101 (181)
T ss_pred             CCCceeeeEeeccCCcccC-CCccccceeEEE----EcceEEEEEecCCCcccccchhhhccCCcEEEEEEeCCcHHHHH
Confidence            7999999999999888776 799995544433    34889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCC-CCceEEEEEeCCCCcccccC---CHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           82 RAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRKV---KNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        82 ~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~~---~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..+..+..... ...|+++.+||.|+.+....   .......-+..+...+..++|.+|+|+.+.++||.+.+..+
T Consensus       102 eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als~~ei~~~L~l~~l~~~~w~iq~~~a~~G~GL~egl~wl~~~~~~~  180 (181)
T KOG0070|consen  102 EAKEELHRMLAEPELRNAPLLVFANKQDLPGALSAAEITNKLGLHSLRSRNWHIQSTCAISGEGLYEGLDWLSNNLKKR  180 (181)
T ss_pred             HHHHHHHHHHcCcccCCceEEEEechhhccccCCHHHHHhHhhhhccCCCCcEEeeccccccccHHHHHHHHHHHHhcc
Confidence            99988888877643 68999999999998764432   21222222333456789999999999999999999987654

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

Probab=99.95  E-value=2.3e-27  Score=159.91  Aligned_cols=144  Identities=22%  Similarity=0.309  Sum_probs=113.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||++++++... ..+.++++.....  +.+.  .+.+.+||+||+..+...+..+++++|++++|||+++++++
T Consensus         8 ~~~GKssli~~~~~~~~-~~~~~t~~~~~~~--~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~   82 (158)
T cd00878           8 DGAGKTTILYKLKLGEV-VTTIPTIGFNVET--VEYK--NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRERI   82 (158)
T ss_pred             CCCCHHHHHHHHhcCCC-CCCCCCcCcceEE--EEEC--CEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCCHHHH
Confidence            69999999999998874 4455777755433  3333  46789999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHH-----HcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQ-----ENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      .....|+..+.... ..+.|+++++||+|+....  ..++......     ...++++++||++|.|++++|++|..
T Consensus        83 ~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~l~~  157 (158)
T cd00878          83 EEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             HHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc--CHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHHHHhh
Confidence            99988888776632 3678999999999986533  2233333222     23468999999999999999999975

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

>cd00879 Sar1 Sar1 subfamily

Probab=99.95  E-value=5.8e-27  Score=162.58  Aligned_cols=145  Identities=21%  Similarity=0.286  Sum_probs=115.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+. .+.+|.+...  ..+.+++  +.+.+||+||+..+...+..+++++|++++|+|+++.+++
T Consensus        28 ~~~GKStLi~~l~~~~~~-~~~~T~~~~~--~~i~~~~--~~~~l~D~~G~~~~~~~~~~~~~~ad~iilV~D~~~~~s~  102 (190)
T cd00879          28 DNAGKTTLLHMLKDDRLA-QHVPTLHPTS--EELTIGN--IKFKTFDLGGHEQARRLWKDYFPEVDGIVFLVDAADPERF  102 (190)
T ss_pred             CCCCHHHHHHHHhcCCCc-ccCCccCcce--EEEEECC--EEEEEEECCCCHHHHHHHHHHhccCCEEEEEEECCcHHHH
Confidence            699999999999988764 4556766543  3334443  5788999999998888889999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHH----------------cCCeEEEEecCCCCCHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQE----------------NGLSFLETSAKSAHNVN  143 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~----------------~~~~~~~~Sa~~~~gi~  143 (181)
                      .....|+..+.... ..+.|+++++||+|+..  .+..++...++..                ..+.++++||++++|+.
T Consensus       103 ~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~  180 (190)
T cd00879         103 QESKEELDSLLSDEELANVPFLILGNKIDLPG--AVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVFMCSVVKRQGYG  180 (190)
T ss_pred             HHHHHHHHHHHcCccccCCCEEEEEeCCCCCC--CcCHHHHHHHhCcccccccccccccccCceeEEEEEeEecCCCChH
Confidence            88888888876532 25689999999999854  4455566555532                22468999999999999


Q ss_pred             HHHHHHHHH
Q 030225          144 ELFYEIAKR  152 (181)
Q Consensus       144 ~~~~~l~~~  152 (181)
                      ++|+||.+.
T Consensus       181 e~~~~l~~~  189 (190)
T cd00879         181 EAFRWLSQY  189 (190)
T ss_pred             HHHHHHHhh
Confidence            999999864

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.

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

Probab=99.95  E-value=1.6e-26  Score=159.55  Aligned_cols=145  Identities=18%  Similarity=0.215  Sum_probs=112.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+.. +.||.+....  .+..  .++++.+||+||+..++.++..++.++|++++|+|+++++++
T Consensus        26 ~~~GKTsli~~l~~~~~~~-~~~t~~~~~~--~~~~--~~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~vvD~~~~~~~  100 (184)
T smart00178       26 DNAGKTTLLHMLKNDRLAQ-HQPTQHPTSE--ELAI--GNIKFTTFDLGGHQQARRLWKDYFPEVNGIVYLVDAYDKERF  100 (184)
T ss_pred             CCCCHHHHHHHHhcCCCcc-cCCccccceE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCcHHHH
Confidence            6999999999999877643 4566554332  2233  346888999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHH------------cCCeEEEEecCCCCCHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE------------NGLSFLETSAKSAHNVNELFY  147 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~------------~~~~~~~~Sa~~~~gi~~~~~  147 (181)
                      .....++..+... ...+.|+++++||+|+..  .+..++......-            ....++++||++++|++++++
T Consensus       101 ~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~--~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa~~~~g~~~~~~  178 (184)
T smart00178      101 AESKRELDALLSDEELATVPFLILGNKIDAPY--AASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSVVRRMGYGEGFK  178 (184)
T ss_pred             HHHHHHHHHHHcChhhcCCCEEEEEeCccccC--CCCHHHHHHHcCCCcccccccccCCceeEEEEeecccCCChHHHHH
Confidence            9988888877653 235789999999999853  3344444433210            124589999999999999999


Q ss_pred             HHHHH
Q 030225          148 EIAKR  152 (181)
Q Consensus       148 ~l~~~  152 (181)
                      ||.+.
T Consensus       179 wl~~~  183 (184)
T smart00178      179 WLSQY  183 (184)
T ss_pred             HHHhh
Confidence            99764

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

>PLN00023 GTP-binding protein; Provisional

Probab=99.95  E-value=3.8e-26  Score=166.53  Aligned_cols=129  Identities=25%  Similarity=0.461  Sum_probs=111.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEEC-------------CeEEEEEEEeCCChhhhhccchhhccCCcE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN-------------EVTIKFDIWDTAGQERYHSLAPMYYRGAAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~-------------~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   67 (181)
                      +|||||||+++|.++.+...+.+|+|.++....+.++             +..+.+.|||++|++.|..++..+++++|+
T Consensus        30 sGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErfrsL~~~yyr~Adg  109 (334)
T PLN00023         30 SGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERYKDCRSLFYSQING  109 (334)
T ss_pred             CCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhhhhhhHHhccCCCE
Confidence            5899999999999999988899999998877766654             246889999999999999999999999999


Q ss_pred             EEEEEECCChhHHHHHHHHHHHHHHhCC------------CCceEEEEEeCCCCcccc---c---CCHHHHHHHHHHcCC
Q 030225           68 AVVVYDITSMDSFERAKKWVQELQRQGN------------PNLIMFLVANKVDLEEKR---K---VKNEEGELYAQENGL  129 (181)
Q Consensus        68 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~------------~~~p~ivi~nK~D~~~~~---~---~~~~~~~~~~~~~~~  129 (181)
                      +|+|||+++..+++.+..|++.+.....            .++|++||+||+|+...+   .   +..++++++++++++
T Consensus       110 iILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~~~~e~a~~~A~~~g~  189 (334)
T PLN00023        110 VIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSGNLVDAARQWVEKQGL  189 (334)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccccccccccccccHHHHHHHHHHcCC
Confidence            9999999999999999999999987531            258999999999996542   2   357889999999884

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.95  E-value=9.6e-27  Score=156.49  Aligned_cols=145  Identities=26%  Similarity=0.357  Sum_probs=115.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++..+..  ....  .+.+.+||+||+..+..++..++.++|++++|+|+++.+++
T Consensus         8 ~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~--~~~~--~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~   83 (159)
T cd04159           8 QNSGKTTLVNVIAGGQFSEDTIPTVGFNMRK--VTKG--NVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAADRTAL   83 (159)
T ss_pred             CCCCHHHHHHHHccCCCCcCccCCCCcceEE--EEEC--CEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCCHHHH
Confidence            6999999999999999998888888866543  2233  37899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHH-----HHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYA-----QENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      .....|+..+... ...++|+++++||+|+.+...  ..+.....     ...+++++++||+++.|+++++++|.+
T Consensus        84 ~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  158 (159)
T cd04159          84 EAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALS--VDELIEQMNLKSITDREVSCYSISCKEKTNIDIVLDWLIK  158 (159)
T ss_pred             HHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcC--HHHHHHHhCcccccCCceEEEEEEeccCCChHHHHHHHhh
Confidence            8888777776543 225789999999999854322  12221111     123467899999999999999999975

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

>cd01890 LepA LepA subfamily

Probab=99.94  E-value=1.4e-25  Score=154.10  Aligned_cols=147  Identities=20%  Similarity=0.248  Sum_probs=106.9

Q ss_pred             CCCchhHHHHHHhhCC-------CCCcccc------ceeeeEEEEEEEE-----CCeEEEEEEEeCCChhhhhccchhhc
Q 030225            1 MGTGKTSLVLRFVKGQ-------FFDFQES------TIGAAFFTQVLSL-----NEVTIKFDIWDTAGQERYHSLAPMYY   62 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~-------~~~~~~~------t~~~~~~~~~~~~-----~~~~~~~~i~D~~G~~~~~~~~~~~~   62 (181)
                      +|||||||+++|++..       +...+.+      +.|.++.......     ++..+.+.+|||||+..+..++..++
T Consensus         9 ~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~   88 (179)
T cd01890           9 IDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFSYEVSRSL   88 (179)
T ss_pred             cCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhHHHHHHHH
Confidence            6899999999999743       1122222      2234444333322     56778899999999999999999999


Q ss_pred             cCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC---eEEEEecCCC
Q 030225           63 RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL---SFLETSAKSA  139 (181)
Q Consensus        63 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~---~~~~~Sa~~~  139 (181)
                      +++|++|+|+|++++.++.....|.... .   .++|+++++||+|+.+..  ......++++.+++   .++++||++|
T Consensus        89 ~~ad~~i~v~D~~~~~~~~~~~~~~~~~-~---~~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~g  162 (179)
T cd01890          89 AACEGALLLVDATQGVEAQTLANFYLAL-E---NNLEIIPVINKIDLPSAD--PERVKQQIEDVLGLDPSEAILVSAKTG  162 (179)
T ss_pred             HhcCeEEEEEECCCCccHhhHHHHHHHH-H---cCCCEEEEEECCCCCcCC--HHHHHHHHHHHhCCCcccEEEeeccCC
Confidence            9999999999999876666555554322 2   467899999999985422  12233455555665   3899999999


Q ss_pred             CCHHHHHHHHHHHH
Q 030225          140 HNVNELFYEIAKRL  153 (181)
Q Consensus       140 ~gi~~~~~~l~~~~  153 (181)
                      +|++++|++|.+.+
T Consensus       163 ~gi~~l~~~l~~~~  176 (179)
T cd01890         163 LGVEDLLEAIVERI  176 (179)
T ss_pred             CCHHHHHHHHHhhC
Confidence            99999999998764

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.94  E-value=4e-25  Score=164.31  Aligned_cols=156  Identities=19%  Similarity=0.154  Sum_probs=110.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh----hhccch---hhccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER----YHSLAP---MYYRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~---~~~~~~d~~i~v~d   73 (181)
                      ||||||||+++|..........+.++.....-.+.+. ...++.+||+||..+    ...+..   ..++.++++++|+|
T Consensus       167 PNaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~-~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a~vlI~ViD  245 (335)
T PRK12299        167 PNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVD-DYKSFVIADIPGLIEGASEGAGLGHRFLKHIERTRLLLHLVD  245 (335)
T ss_pred             CCCCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeC-CCcEEEEEeCCCccCCCCccccHHHHHHHHhhhcCEEEEEEc
Confidence            8999999999999765332211222222222223332 234688999999632    112222   34567999999999


Q ss_pred             CCChhHHHHHHHHHHHHHHhCC--CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           74 ITSMDSFERAKKWVQELQRQGN--PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        74 ~~~~~s~~~~~~~~~~~~~~~~--~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +++.++++.+..|...+..+..  .++|+++++||+|+.........+...+....+.+++++||++++|+++++++|.+
T Consensus       246 ~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~GI~eL~~~L~~  325 (335)
T PRK12299        246 IEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEGLDELLRALWE  325 (335)
T ss_pred             CCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHH
Confidence            9988889999999988877532  47899999999998654444444445555566789999999999999999999999


Q ss_pred             HHHhhC
Q 030225          152 RLAEVN  157 (181)
Q Consensus       152 ~~~~~~  157 (181)
                      .+.+.+
T Consensus       326 ~l~~~~  331 (335)
T PRK12299        326 LLEEAR  331 (335)
T ss_pred             HHHhhh
Confidence            877643

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

Probab=99.93  E-value=1e-26  Score=148.12  Aligned_cols=148  Identities=22%  Similarity=0.379  Sum_probs=121.4

Q ss_pred             CCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHH
Q 030225            2 GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFE   81 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   81 (181)
                      +||||||++....+.+.+...||.|    .....+..+++.+.+||.||+..|+.+|..|.+.+++++||+|++|++.++
T Consensus        30 ~sGKtt~Vn~ia~g~~~edmiptvG----fnmrk~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~VDaad~~k~~  105 (186)
T KOG0075|consen   30 NSGKTTLVNVIARGQYLEDMIPTVG----FNMRKVTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYVVDAADPDKLE  105 (186)
T ss_pred             cCCcceEEEEEeeccchhhhccccc----ceeEEeccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEEeecCCcccch
Confidence            7999999999999998888888888    455567788899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCC-CCceEEEEEeCCCCccccc---CCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           82 RAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRK---VKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        82 ~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~---~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      ..+..+..++.+.. .+.|++++|||.|+.+.-.   +.++.+...+..+.+-.|.+|+++..+++-+.+||++.-
T Consensus       106 ~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL~~~~li~rmgL~sitdREvcC~siScke~~Nid~~~~Wli~hs  181 (186)
T KOG0075|consen  106 ASRSELHDLLDKPSLTGIPLLVLGNKIDLPGALSKIALIERMGLSSITDREVCCFSISCKEKVNIDITLDWLIEHS  181 (186)
T ss_pred             hhHHHHHHHhcchhhcCCcEEEecccccCcccccHHHHHHHhCccccccceEEEEEEEEcCCccHHHHHHHHHHHh
Confidence            88888888877543 7899999999999865321   111111122233345689999999999999999998753

>cd01898 Obg Obg subfamily

Probab=99.93  E-value=3.9e-25  Score=150.68  Aligned_cols=150  Identities=19%  Similarity=0.155  Sum_probs=102.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh----hhhccchhh---ccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE----RYHSLAPMY---YRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~----~~~~~~~~~---~~~~d~~i~v~d   73 (181)
                      ||||||||+++|.+........+..+.+.....+..++ ...+.+|||||..    .++.+...+   +..+|++++|+|
T Consensus         9 ~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~~~-~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D   87 (170)
T cd01898           9 PNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDD-GRSFVVADIPGLIEGASEGKGLGHRFLRHIERTRLLLHVID   87 (170)
T ss_pred             CCCCHHHHHHHHhcCCccccCCCccccCCcceEEEcCC-CCeEEEEecCcccCcccccCCchHHHHHHHHhCCEEEEEEe
Confidence            69999999999997654211111111111111122222 2478899999963    222233333   346999999999


Q ss_pred             CCCh-hHHHHHHHHHHHHHHhCC--CCceEEEEEeCCCCcccccCCHHHHHHHHHH-cCCeEEEEecCCCCCHHHHHHHH
Q 030225           74 ITSM-DSFERAKKWVQELQRQGN--PNLIMFLVANKVDLEEKRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        74 ~~~~-~s~~~~~~~~~~~~~~~~--~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~gi~~~~~~l  149 (181)
                      ++++ ++++.+..|.+.+.....  .+.|+++++||+|+.+.... .+....+... .+.+++++||+++.|++++|++|
T Consensus        88 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  166 (170)
T cd01898          88 LSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEEL-FELLKELLKELWGKPVFPISALTGEGLDELLRKL  166 (170)
T ss_pred             cCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhh-HHHHHHHHhhCCCCCEEEEecCCCCCHHHHHHHH
Confidence            9998 788888889888876532  46899999999998654443 3334444555 36889999999999999999999


Q ss_pred             HHH
Q 030225          150 AKR  152 (181)
Q Consensus       150 ~~~  152 (181)
                      .+.
T Consensus       167 ~~~  169 (170)
T cd01898         167 AEL  169 (170)
T ss_pred             Hhh
Confidence            864

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.93  E-value=3.9e-24  Score=142.30  Aligned_cols=149  Identities=46%  Similarity=0.775  Sum_probs=118.8

Q ss_pred             CCCchhHHHHHHhhCCC-CCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQF-FDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|+|||||++++.+... .....++. ..+.............+.+||+||...+...+..++..+|++++|+|++++.+
T Consensus         5 ~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~   83 (157)
T cd00882           5 SGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVTDRES   83 (157)
T ss_pred             CCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECcCHHH
Confidence            69999999999998877 45554555 67777777777788899999999998888888889999999999999999999


Q ss_pred             HHHHHHHHH-HHHHhCCCCceEEEEEeCCCCcccccCCHHH-HHHHHHHcCCeEEEEecCCCCCHHHHHHHHH
Q 030225           80 FERAKKWVQ-ELQRQGNPNLIMFLVANKVDLEEKRKVKNEE-GELYAQENGLSFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        80 ~~~~~~~~~-~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~-~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      +.....|+. .+......++|+++++||+|+.......... ........+.+++++|+.++.|+++++++|.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882          84 FENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             HHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            888877732 2223334789999999999986544433322 3445555678999999999999999999986

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

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

Probab=99.93  E-value=7e-25  Score=149.18  Aligned_cols=148  Identities=18%  Similarity=0.126  Sum_probs=100.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc---------cchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS---------LAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---------~~~~~~~~~d~~i~v   71 (181)
                      ||||||||+++|.+..+.....+..+  ............+.+.+|||||......         ........+|++++|
T Consensus         9 ~~~GKssli~~l~~~~~~~~~~~~~t--~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~d~~l~v   86 (168)
T cd01897           9 PNVGKSSLVNKLTRAKPEVAPYPFTT--KSLFVGHFDYKYLRWQVIDTPGLLDRPLEERNTIEMQAITALAHLRAAVLFL   86 (168)
T ss_pred             CCCCHHHHHHHHhcCCCccCCCCCcc--cceeEEEEccCceEEEEEECCCcCCccccCCchHHHHHHHHHHhccCcEEEE
Confidence            79999999999998876432212111  1122222333457899999999742110         001112236899999


Q ss_pred             EECCChhH--HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHH
Q 030225           72 YDITSMDS--FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        72 ~d~~~~~s--~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l  149 (181)
                      +|+++..+  ++....|+..+.... .+.|+++++||+|+.+...+..  ...+....+.+++++||++|.|++++|++|
T Consensus        87 ~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK~Dl~~~~~~~~--~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  163 (168)
T cd01897          87 FDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNKIDLLTFEDLSE--IEEEEELEGEEVLKISTLTEEGVDEVKNKA  163 (168)
T ss_pred             EeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEccccCchhhHHH--HHHhhhhccCceEEEEecccCCHHHHHHHH
Confidence            99998765  355667777776543 4789999999999865443322  444555556889999999999999999999


Q ss_pred             HHHH
Q 030225          150 AKRL  153 (181)
Q Consensus       150 ~~~~  153 (181)
                      .+.+
T Consensus       164 ~~~~  167 (168)
T cd01897         164 CELL  167 (168)
T ss_pred             HHHh
Confidence            8865

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.

>cd04171 SelB SelB subfamily

Probab=99.93  E-value=1.7e-24  Score=146.50  Aligned_cols=144  Identities=17%  Similarity=0.139  Sum_probs=97.3

Q ss_pred             CCCchhHHHHHHhhCC---CCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCC-
Q 030225            1 MGTGKTSLVLRFVKGQ---FFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITS-   76 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~---~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~-   76 (181)
                      ||||||||+++|.+..   +...+.++++.+.....+.... ...+.+|||||++.+......++.++|++++|+|+++ 
T Consensus         9 ~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~~~   87 (164)
T cd04171           9 IDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS-GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAADEG   87 (164)
T ss_pred             CCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecC-CcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECCCC
Confidence            7999999999999642   3333333434333333444432 3578999999999887766777889999999999986 


Q ss_pred             --hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc--CCHHHHHHHHHH---cCCeEEEEecCCCCCHHHHHHHH
Q 030225           77 --MDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK--VKNEEGELYAQE---NGLSFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        77 --~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~--~~~~~~~~~~~~---~~~~~~~~Sa~~~~gi~~~~~~l  149 (181)
                        +.+.+.    +..+...  ..+|+++++||+|+.+...  ....+.....+.   .+.+++++||++++|++++++++
T Consensus        88 ~~~~~~~~----~~~~~~~--~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  161 (164)
T cd04171          88 IMPQTREH----LEILELL--GIKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGEGIEELKEYL  161 (164)
T ss_pred             ccHhHHHH----HHHHHHh--CCCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCcCHHHHHHHH
Confidence              333322    2222222  2348999999999864321  112333344443   35789999999999999999988


Q ss_pred             HH
Q 030225          150 AK  151 (181)
Q Consensus       150 ~~  151 (181)
                      .+
T Consensus       162 ~~  163 (164)
T cd04171         162 DE  163 (164)
T ss_pred             hh
Confidence            64

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

>cd04155 Arl3 Arl3 subfamily

Probab=99.93  E-value=3e-24  Score=146.81  Aligned_cols=141  Identities=21%  Similarity=0.287  Sum_probs=107.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||++++.+..+.. +.++.|..+.  .+..++  ..+.+||+||+..+...+..+++++|++++|+|+++..++
T Consensus        23 ~g~GKStLl~~l~~~~~~~-~~~t~g~~~~--~i~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~v~D~~~~~~~   97 (173)
T cd04155          23 DNAGKTTILKQLASEDISH-ITPTQGFNIK--TVQSDG--FKLNVWDIGGQRAIRPYWRNYFENTDCLIYVIDSADKKRL   97 (173)
T ss_pred             CCCCHHHHHHHHhcCCCcc-cCCCCCcceE--EEEECC--EEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEeCCCHHHH
Confidence            6999999999999876543 4567665443  333343  5788999999998888888899999999999999999889


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC--------CeEEEEecCCCCCHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG--------LSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~--------~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      .....|+..+... ...++|+++++||+|+.+...  .++   +.+..+        .+++++||++|+|++++|+||++
T Consensus        98 ~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~---i~~~l~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  172 (173)
T cd04155          98 EEAGAELVELLEEEKLAGVPVLVFANKQDLATAAP--AEE---IAEALNLHDLRDRTWHIQACSAKTGEGLQEGMNWVCK  172 (173)
T ss_pred             HHHHHHHHHHHhChhhcCCCEEEEEECCCCccCCC--HHH---HHHHcCCcccCCCeEEEEEeECCCCCCHHHHHHHHhc
Confidence            8888777776543 235789999999999854322  122   222222        24789999999999999999975

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.

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

Probab=99.93  E-value=3.6e-24  Score=144.19  Aligned_cols=144  Identities=20%  Similarity=0.161  Sum_probs=105.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc------cchhhcc--CCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS------LAPMYYR--GAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~~--~~d~~i~v~   72 (181)
                      +|||||||++++.+........+.++.+.....+..++  ..+.+|||||...+..      ++..++.  ++|++++|+
T Consensus         5 ~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~   82 (158)
T cd01879           5 PNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLIVNVV   82 (158)
T ss_pred             CCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC--eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEEEEEe
Confidence            68999999999998765444445555555455555554  4688999999876554      2455564  899999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      |+++++...   .|+..+..   .++|+++++||+|+.+...+.. ....+....+++++++||+++.|+++++++|.+.
T Consensus        83 d~~~~~~~~---~~~~~~~~---~~~~~iiv~NK~Dl~~~~~~~~-~~~~~~~~~~~~~~~iSa~~~~~~~~l~~~l~~~  155 (158)
T cd01879          83 DATNLERNL---YLTLQLLE---LGLPVVVALNMIDEAEKRGIKI-DLDKLSELLGVPVVPTSARKGEGIDELKDAIAEL  155 (158)
T ss_pred             eCCcchhHH---HHHHHHHH---cCCCEEEEEehhhhcccccchh-hHHHHHHhhCCCeEEEEccCCCCHHHHHHHHHHH
Confidence            999765432   34444433   3689999999999966444333 3456667778999999999999999999999876


Q ss_pred             H
Q 030225          153 L  153 (181)
Q Consensus       153 ~  153 (181)
                      +
T Consensus       156 ~  156 (158)
T cd01879         156 A  156 (158)
T ss_pred             h
Confidence            3

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.93  E-value=6.4e-24  Score=142.42  Aligned_cols=149  Identities=28%  Similarity=0.485  Sum_probs=119.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCCh-hH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSM-DS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~-~s   79 (181)
                      +|||||||++++....+...+.++++.++....+..++..+.+.+||+||+..+..++..++++++.+++++|.... .+
T Consensus        10 ~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~~d~~~~v~~   89 (161)
T TIGR00231        10 PNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRVFDIVILVLD   89 (161)
T ss_pred             CCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEEEEEeeeehh
Confidence            69999999999999987777778888877777677777778899999999999988889999999999999999877 66


Q ss_pred             HHHHH-HHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHH
Q 030225           80 FERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        80 ~~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      +.... .|...+......+.|+++++||.|+.... ........+......+++++||.++.|+.+++++|-
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~l~  160 (161)
T TIGR00231        90 VEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIVE  160 (161)
T ss_pred             hhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch-hhHHHHHHHhhccCCceEEeecCCCCCHHHHHHHhh
Confidence            66654 66666666543378999999999986533 233333334443457899999999999999999873

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.

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

Probab=99.92  E-value=2e-23  Score=147.86  Aligned_cols=158  Identities=39%  Similarity=0.526  Sum_probs=130.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCCh-hH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSM-DS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~-~s   79 (181)
                      +|||||||+++|.++.+...+.++++..+...........+++.+||++|+++++.++..++.+++++++|||.++. .+
T Consensus        14 ~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~d~~~~~~~   93 (219)
T COG1100          14 GGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTLRESS   93 (219)
T ss_pred             CCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEEecccchhh
Confidence            68999999999999999999999998888777777776688999999999999999999999999999999999994 45


Q ss_pred             HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccc------------cCCHHHHHHHHHHc---CCeEEEEecC--CCCCH
Q 030225           80 FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR------------KVKNEEGELYAQEN---GLSFLETSAK--SAHNV  142 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~------------~~~~~~~~~~~~~~---~~~~~~~Sa~--~~~gi  142 (181)
                      ++....|...+........|+++++||+|+....            ..............   ...++++|++  .+.++
T Consensus        94 ~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~v  173 (219)
T COG1100          94 DELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNV  173 (219)
T ss_pred             hHHHHHHHHHHHHhCCCCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeEeecccCCCcCH
Confidence            5667889989888765679999999999997643            23333333333222   3348999999  99999


Q ss_pred             HHHHHHHHHHHHhhCC
Q 030225          143 NELFYEIAKRLAEVNP  158 (181)
Q Consensus       143 ~~~~~~l~~~~~~~~~  158 (181)
                      .++|..+...+.+...
T Consensus       174 ~~~~~~~~~~~~~~~~  189 (219)
T COG1100         174 NELFKELLRKLLEEIE  189 (219)
T ss_pred             HHHHHHHHHHHHHhhh
Confidence            9999999998876533

>cd01878 HflX HflX subfamily

Probab=99.92  E-value=3.8e-24  Score=150.03  Aligned_cols=145  Identities=22%  Similarity=0.204  Sum_probs=102.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh---------hhccchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER---------YHSLAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~~~~d~~i~v   71 (181)
                      ||||||||++++.+..+.....+..+.+.....+.+.+. ..+.+||+||...         +...+ ..+.++|++++|
T Consensus        50 ~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~~~-~~~~~~d~ii~v  127 (204)
T cd01878          50 TNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDG-REVLLTDTVGFIRDLPHQLVEAFRSTL-EEVAEADLLLHV  127 (204)
T ss_pred             CCCCHHHHHHHHhcchhccCCccceeccceeEEEEecCC-ceEEEeCCCccccCCCHHHHHHHHHHH-HHHhcCCeEEEE
Confidence            699999999999987643322222222223333334433 3788999999732         11111 236689999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           72 YDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +|++++.++.....|...+......+.|+++|+||+|+......     .......+.+++++||+++.|+++++++|.+
T Consensus       128 ~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~~-----~~~~~~~~~~~~~~Sa~~~~gi~~l~~~L~~  202 (204)
T cd01878         128 VDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEEL-----EERLEAGRPDAVFISAKTGEGLDELLEAIEE  202 (204)
T ss_pred             EECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHHH-----HHHhhcCCCceEEEEcCCCCCHHHHHHHHHh
Confidence            99999888887777777776654457899999999998553321     1334445678999999999999999999987


Q ss_pred             H
Q 030225          152 R  152 (181)
Q Consensus       152 ~  152 (181)
                      .
T Consensus       203 ~  203 (204)
T cd01878         203 L  203 (204)
T ss_pred             h
Confidence            5

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.

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

Probab=99.92  E-value=9.2e-25  Score=138.19  Aligned_cols=146  Identities=23%  Similarity=0.377  Sum_probs=118.4

Q ss_pred             CCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHH
Q 030225            2 GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFE   81 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   81 (181)
                      ++||||++.+|+.+.... ..||+|..+.    .+...++.|++||.+|++..+.+|.+||....++|||+|..+.+.++
T Consensus        27 ~aGKTtiLyKLkl~~~~~-~ipTvGFnve----tVtykN~kfNvwdvGGqd~iRplWrhYy~gtqglIFV~Dsa~~dr~e  101 (180)
T KOG0071|consen   27 AAGKTTILYKLKLGQSVT-TIPTVGFNVE----TVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIE  101 (180)
T ss_pred             cCCceehhhHHhcCCCcc-cccccceeEE----EEEeeeeEEeeeeccCchhhhHHHHhhccCCceEEEEEeccchhhHH
Confidence            799999999999877555 4588885443    34567889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHH-----HHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           82 RAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELY-----AQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        82 ~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..+-.+... .....|+++.+||.|+.+...  ..+...+     ++...+.+..++|.+|.|+.+.|.||.+.+.
T Consensus       102 eAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~--pqei~d~leLe~~r~~~W~vqp~~a~~gdgL~eglswlsnn~~  178 (180)
T KOG0071|consen  102 EARNELHRIINDREMRDAIILILANKQDLPDAMK--PQEIQDKLELERIRDRNWYVQPSCALSGDGLKEGLSWLSNNLK  178 (180)
T ss_pred             HHHHHHHHHhCCHhhhcceEEEEecCcccccccC--HHHHHHHhccccccCCccEeeccccccchhHHHHHHHHHhhcc
Confidence            998887777653 346889999999999976543  2333322     3444577899999999999999999987653

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.92  E-value=1.3e-24  Score=144.03  Aligned_cols=127  Identities=20%  Similarity=0.244  Sum_probs=94.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh-----hhhccchhhccCCcEEEEEEECC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE-----RYHSLAPMYYRGAAAAVVVYDIT   75 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~-----~~~~~~~~~~~~~d~~i~v~d~~   75 (181)
                      ||||||||+++|.+..+  .+.+|++.++       ..     .+||+||..     .+..+.. .++++|++++|||++
T Consensus         9 ~~vGKSsL~~~l~~~~~--~~~~t~~~~~-------~~-----~~iDt~G~~~~~~~~~~~~~~-~~~~ad~vilv~d~~   73 (142)
T TIGR02528         9 VGCGKTTLTQALQGEEI--LYKKTQAVEY-------ND-----GAIDTPGEYVENRRLYSALIV-TAADADVIALVQSAT   73 (142)
T ss_pred             CCCCHHHHHHHHcCCcc--ccccceeEEE-------cC-----eeecCchhhhhhHHHHHHHHH-HhhcCCEEEEEecCC
Confidence            79999999999998765  2344544332       11     589999972     3344433 478999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHH
Q 030225           76 SMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        76 ~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      ++.++.. ..|...+      ..|+++++||+|+.+ .....+++.++++..+. +++++||+++.|++++|++|.
T Consensus        74 ~~~s~~~-~~~~~~~------~~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  141 (142)
T TIGR02528        74 DPESRFP-PGFASIF------VKPVIGLVTKIDLAE-ADVDIERAKELLETAGAEPIFEISSVDEQGLEALVDYLN  141 (142)
T ss_pred             CCCcCCC-hhHHHhc------cCCeEEEEEeeccCC-cccCHHHHHHHHHHcCCCcEEEEecCCCCCHHHHHHHHh
Confidence            9988754 3343321      248999999999864 33455666777777776 799999999999999999984

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.

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

Probab=99.92  E-value=9.8e-24  Score=143.45  Aligned_cols=150  Identities=15%  Similarity=0.114  Sum_probs=102.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEEC-CeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN-EVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|||||||+++|....+.....++++.+.....+..+ +....+.+|||||+..+..++..++..+|++++|+|+++...
T Consensus         9 ~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~~~~~   88 (168)
T cd01887           9 VDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVVAADDGVM   88 (168)
T ss_pred             CCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECCCCcc
Confidence            6999999999999988776544444444433333333 235678999999999888888888999999999999987432


Q ss_pred             HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC-CHHHHHHHHH------HcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           80 FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV-KNEEGELYAQ------ENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~-~~~~~~~~~~------~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      .. ....+..+..   .+.|+++++||+|+.+.... .......+..      ...++++++||++++|+++++++|.+.
T Consensus        89 ~~-~~~~~~~~~~---~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~  164 (168)
T cd01887          89 PQ-TIEAIKLAKA---ANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDLLEAILLL  164 (168)
T ss_pred             HH-HHHHHHHHHH---cCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEeecccCCCHHHHHHHHHHh
Confidence            11 1112222322   46799999999998642210 0111111111      113679999999999999999999876


Q ss_pred             HH
Q 030225          153 LA  154 (181)
Q Consensus       153 ~~  154 (181)
                      ..
T Consensus       165 ~~  166 (168)
T cd01887         165 AE  166 (168)
T ss_pred             hh
Confidence            54

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.

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

Probab=99.91  E-value=7.3e-24  Score=147.51  Aligned_cols=152  Identities=20%  Similarity=0.209  Sum_probs=105.8

Q ss_pred             CCCchhHHHHHHhh--CCCCCcc------------ccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            1 MGTGKTSLVLRFVK--GQFFDFQ------------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         1 ~~~GKttLl~~l~~--~~~~~~~------------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      +|||||||+++|+.  +.+...+            .++.|.++......+++..+++.+||+||++.|...+..+++++|
T Consensus        11 ~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~d   90 (194)
T cd01891          11 VDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEVERVLSMVD   90 (194)
T ss_pred             CCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHHHHHHHhcC
Confidence            68999999999997  4444332            234555565666666667788999999999999999999999999


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc-CCHHHHHHHHHH-------cCCeEEEEecCC
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK-VKNEEGELYAQE-------NGLSFLETSAKS  138 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~-~~~~~~~~~~~~-------~~~~~~~~Sa~~  138 (181)
                      ++++|+|+++. .+.....++..+..   .+.|+++++||+|+.+... ...++...+...       .+++++++||++
T Consensus        91 ~~ilV~d~~~~-~~~~~~~~~~~~~~---~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~~Sa~~  166 (194)
T cd01891          91 GVLLLVDASEG-PMPQTRFVLKKALE---LGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLDFPVLYASAKN  166 (194)
T ss_pred             EEEEEEECCCC-ccHHHHHHHHHHHH---cCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCccCEEEeehhc
Confidence            99999999873 22333344444433   3678999999999854322 122333444322       367899999999


Q ss_pred             CCCHHHH------HHHHHHHHHhh
Q 030225          139 AHNVNEL------FYEIAKRLAEV  156 (181)
Q Consensus       139 ~~gi~~~------~~~l~~~~~~~  156 (181)
                      |.|+.++      +++|++.+.+.
T Consensus       167 g~~~~~~~~~~~~~~~l~~~~~~~  190 (194)
T cd01891         167 GWASLNLEDPSEDLEPLFDTIIEH  190 (194)
T ss_pred             cccccccccchhhHHHHHHHHHhc
Confidence            9887444      45555555543

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

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.91  E-value=4.3e-23  Score=153.36  Aligned_cols=151  Identities=19%  Similarity=0.190  Sum_probs=104.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhh----hccchhh---ccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY----HSLAPMY---YRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----~~~~~~~---~~~~d~~i~v~d   73 (181)
                      ||||||||+++|..........+.++.....-.+.+++ ..++.+||+||..+.    ..+...+   +..++++++|+|
T Consensus       166 pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~~~-~~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll~VvD  244 (329)
T TIGR02729       166 PNAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDD-GRSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLID  244 (329)
T ss_pred             CCCCHHHHHHHHhcCCccccCCCCCccCCEEEEEEeCC-ceEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEEEEEc
Confidence            79999999999998653221111111111122223332 357889999997421    1233333   457999999999


Q ss_pred             CCCh---hHHHHHHHHHHHHHHhC--CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHH
Q 030225           74 ITSM---DSFERAKKWVQELQRQG--NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYE  148 (181)
Q Consensus        74 ~~~~---~s~~~~~~~~~~~~~~~--~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~  148 (181)
                      +++.   ++++.+..|.+.+....  ..++|+++|+||+|+..... ..+....+.+..+.+++++||++++|+++++++
T Consensus       245 ~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~-~~~~~~~l~~~~~~~vi~iSAktg~GI~eL~~~  323 (329)
T TIGR02729       245 ISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEE-LAELLKELKKALGKPVFPISALTGEGLDELLYA  323 (329)
T ss_pred             CccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHH-HHHHHHHHHHHcCCcEEEEEccCCcCHHHHHHH
Confidence            9986   67788888887776543  24789999999999865432 233344556666789999999999999999999


Q ss_pred             HHHHH
Q 030225          149 IAKRL  153 (181)
Q Consensus       149 l~~~~  153 (181)
                      |.+.+
T Consensus       324 I~~~l  328 (329)
T TIGR02729       324 LAELL  328 (329)
T ss_pred             HHHHh
Confidence            98754

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.

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

Probab=99.91  E-value=1.1e-23  Score=144.24  Aligned_cols=151  Identities=21%  Similarity=0.178  Sum_probs=102.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh----hhccc---hhhccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER----YHSLA---PMYYRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~---~~~~~~~d~~i~v~d   73 (181)
                      ||||||||+++|.+........+..+.+.....+..++ ...+.+||+||...    ...++   ...++++|++++|+|
T Consensus         5 ~~~GKStll~~l~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d   83 (176)
T cd01881           5 PNVGKSTLLNALTNAKPKVANYPFTTLEPNLGVVEVPD-GARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAILHVVD   83 (176)
T ss_pred             CCCcHHHHHHHHhcCCccccCCCceeecCcceEEEcCC-CCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEEEEEe
Confidence            69999999999998864211111111222222233331 45678999999632    12222   234678999999999


Q ss_pred             CCCh------hHHHHHHHHHHHHHHhCC-------CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCC
Q 030225           74 ITSM------DSFERAKKWVQELQRQGN-------PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAH  140 (181)
Q Consensus        74 ~~~~------~s~~~~~~~~~~~~~~~~-------~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  140 (181)
                      ++++      .++++...|...+.....       .+.|+++++||+|+..................+..++++||+++.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  163 (176)
T cd01881          84 ASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRELALEEGAEVVPISAKTEE  163 (176)
T ss_pred             ccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCCEEEEehhhhc
Confidence            9988      578888778777765432       378999999999986544433322233344456789999999999


Q ss_pred             CHHHHHHHHHHH
Q 030225          141 NVNELFYEIAKR  152 (181)
Q Consensus       141 gi~~~~~~l~~~  152 (181)
                      |++++++++.+.
T Consensus       164 gl~~l~~~l~~~  175 (176)
T cd01881         164 GLDELIRAIYEL  175 (176)
T ss_pred             CHHHHHHHHHhh
Confidence            999999999764

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

>TIGR00436 era GTP-binding protein Era

Probab=99.91  E-value=2.1e-23  Score=151.96  Aligned_cols=151  Identities=19%  Similarity=0.054  Sum_probs=99.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhh-hc-------cchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY-HS-------LAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-~~-------~~~~~~~~~d~~i~v~   72 (181)
                      ||||||||+|+|.+..+.... +..+++.............++.+|||||.... +.       ....++.++|++++|+
T Consensus         9 pnvGKSTLln~L~~~~~~~vs-~~~~TTr~~i~~i~~~~~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDvvl~Vv   87 (270)
T TIGR00436         9 PNVGKSTLLNQLHGQKISITS-PKAQTTRNRISGIHTTGASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDLILFVV   87 (270)
T ss_pred             CCCCHHHHHHHHhCCcEeecC-CCCCcccCcEEEEEEcCCcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCEEEEEE
Confidence            799999999999998764322 11122221111111222356899999996432 11       1235678999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      |+++..+..  ..++..+..   .+.|+++++||+|+..... .......+....+. +++++||++|.|+++++++|.+
T Consensus        88 D~~~~~~~~--~~i~~~l~~---~~~p~ilV~NK~Dl~~~~~-~~~~~~~~~~~~~~~~v~~iSA~~g~gi~~L~~~l~~  161 (270)
T TIGR00436        88 DSDQWNGDG--EFVLTKLQN---LKRPVVLTRNKLDNKFKDK-LLPLIDKYAILEDFKDIVPISALTGDNTSFLAAFIEV  161 (270)
T ss_pred             ECCCCCchH--HHHHHHHHh---cCCCEEEEEECeeCCCHHH-HHHHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHHH
Confidence            999876654  334444433   3689999999999853222 22233444444444 7999999999999999999998


Q ss_pred             HHHhhCC
Q 030225          152 RLAEVNP  158 (181)
Q Consensus       152 ~~~~~~~  158 (181)
                      .+.+..+
T Consensus       162 ~l~~~~~  168 (270)
T TIGR00436       162 HLPEGPF  168 (270)
T ss_pred             hCCCCCC
Confidence            8766544

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

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.90  E-value=9.9e-23  Score=152.64  Aligned_cols=144  Identities=22%  Similarity=0.205  Sum_probs=101.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCCh---------hhhhccchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ---------ERYHSLAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~---------~~~~~~~~~~~~~~d~~i~v   71 (181)
                      ||+|||||+|+|.+........+..+.+.....+.++++ ..+.+|||+|.         +.|...+ ..+.++|++++|
T Consensus       198 ~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~~-~~i~l~DT~G~~~~l~~~lie~f~~tl-e~~~~ADlil~V  275 (351)
T TIGR03156       198 TNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPDG-GEVLLTDTVGFIRDLPHELVAAFRATL-EEVREADLLLHV  275 (351)
T ss_pred             CCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCCC-ceEEEEecCcccccCCHHHHHHHHHHH-HHHHhCCEEEEE
Confidence            799999999999987654333333333444455555432 37889999996         2233222 247899999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           72 YDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +|++++.+.+....|...+......++|+++|+||+|+.....     .... .....+++++||++|.|+++++++|.+
T Consensus       276 vD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~~-----v~~~-~~~~~~~i~iSAktg~GI~eL~~~I~~  349 (351)
T TIGR03156       276 VDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEPR-----IERL-EEGYPEAVFVSAKTGEGLDLLLEAIAE  349 (351)
T ss_pred             EECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCChHh-----HHHH-HhCCCCEEEEEccCCCCHHHHHHHHHh
Confidence            9999988887777666666555445789999999999854221     1111 122356899999999999999999876


Q ss_pred             H
Q 030225          152 R  152 (181)
Q Consensus       152 ~  152 (181)
                      .
T Consensus       350 ~  350 (351)
T TIGR03156       350 R  350 (351)
T ss_pred             h
Confidence            4

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).

>PRK04213 GTP-binding protein; Provisional

Probab=99.90  E-value=1.3e-23  Score=147.01  Aligned_cols=143  Identities=26%  Similarity=0.237  Sum_probs=95.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCC-----------hhhhhccchhhcc----CC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAG-----------QERYHSLAPMYYR----GA   65 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G-----------~~~~~~~~~~~~~----~~   65 (181)
                      +|||||||+++|.+..+...+.+  ++++....+...    .+.+||+||           ++.++..+..++.    .+
T Consensus        18 ~~~GKSsLin~l~~~~~~~~~~~--~~t~~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (201)
T PRK04213         18 SNVGKSTLVRELTGKKVRVGKRP--GVTRKPNHYDWG----DFILTDLPGFGFMSGVPKEVQEKIKDEIVRYIEDNADRI   91 (201)
T ss_pred             CCCCHHHHHHHHhCCCCccCCCC--ceeeCceEEeec----ceEEEeCCccccccccCHHHHHHHHHHHHHHHHhhhhhh
Confidence            69999999999998876554444  334444433333    578999999           4566666555553    45


Q ss_pred             cEEEEEEECCChhHH----H------HHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC------
Q 030225           66 AAAVVVYDITSMDSF----E------RAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL------  129 (181)
Q Consensus        66 d~~i~v~d~~~~~s~----~------~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~------  129 (181)
                      +++++|+|.++...+    .      ....++..+.   ..+.|+++++||+|+.+..   .+....+....++      
T Consensus        92 ~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~p~iiv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~~  165 (201)
T PRK04213         92 LAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLR---ELGIPPIVAVNKMDKIKNR---DEVLDEIAERLGLYPPWRQ  165 (201)
T ss_pred             eEEEEEEeCccccccccccccCCCcHHHHHHHHHHH---HcCCCeEEEEECccccCcH---HHHHHHHHHHhcCCccccc
Confidence            788888887653211    0      0011122222   2468999999999985433   2344555555554      


Q ss_pred             ---eEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          130 ---SFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       130 ---~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                         +++++||++| |+++++++|.+.+.+.
T Consensus       166 ~~~~~~~~SA~~g-gi~~l~~~l~~~~~~~  194 (201)
T PRK04213        166 WQDIIAPISAKKG-GIEELKEAIRKRLHEA  194 (201)
T ss_pred             cCCcEEEEecccC-CHHHHHHHHHHhhcCc
Confidence               4799999999 9999999998876543

>PRK15494 era GTPase Era; Provisional

Probab=99.90  E-value=8.2e-23  Score=152.79  Aligned_cols=152  Identities=20%  Similarity=0.253  Sum_probs=101.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeE--EEEEEEECCeEEEEEEEeCCChhh-hhccc-------hhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQER-YHSLA-------PMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~--~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~-------~~~~~~~d~~i~   70 (181)
                      ||||||||+|+|++..+.. ..+..++++  ....+..++  .++.||||||... +..+.       ...+.++|++++
T Consensus        61 ~nvGKSTLin~l~~~k~~i-vs~k~~tTr~~~~~~~~~~~--~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aDvil~  137 (339)
T PRK15494         61 PNSGKSTLLNRIIGEKLSI-VTPKVQTTRSIITGIITLKD--TQVILYDTPGIFEPKGSLEKAMVRCAWSSLHSADLVLL  137 (339)
T ss_pred             CCCCHHHHHHHHhCCceee-ccCCCCCccCcEEEEEEeCC--eEEEEEECCCcCCCcccHHHHHHHHHHHHhhhCCEEEE
Confidence            7999999999999887653 223333222  223334443  4689999999742 22221       124679999999


Q ss_pred             EEECCChhHHHHHH-HHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC--CeEEEEecCCCCCHHHHHH
Q 030225           71 VYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG--LSFLETSAKSAHNVNELFY  147 (181)
Q Consensus        71 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~~~~  147 (181)
                      |+|.++  ++.... .|+..+...   +.|.++++||+|+.+.   ...+..+++...+  ..++++||++|.|++++++
T Consensus       138 VvD~~~--s~~~~~~~il~~l~~~---~~p~IlViNKiDl~~~---~~~~~~~~l~~~~~~~~i~~iSAktg~gv~eL~~  209 (339)
T PRK15494        138 IIDSLK--SFDDITHNILDKLRSL---NIVPIFLLNKIDIESK---YLNDIKAFLTENHPDSLLFPISALSGKNIDGLLE  209 (339)
T ss_pred             EEECCC--CCCHHHHHHHHHHHhc---CCCEEEEEEhhcCccc---cHHHHHHHHHhcCCCcEEEEEeccCccCHHHHHH
Confidence            999764  444443 345555433   4567789999998542   2344555555444  5799999999999999999


Q ss_pred             HHHHHHHhhCCCCccc
Q 030225          148 EIAKRLAEVNPSRQTG  163 (181)
Q Consensus       148 ~l~~~~~~~~~~~~~~  163 (181)
                      +|.+.+.+..+--+.+
T Consensus       210 ~L~~~l~~~~~~~~~~  225 (339)
T PRK15494        210 YITSKAKISPWLYAED  225 (339)
T ss_pred             HHHHhCCCCCCCCCCC
Confidence            9999888766544433

>cd01894 EngA1 EngA1 subfamily

Probab=99.89  E-value=1.2e-22  Score=136.52  Aligned_cols=140  Identities=18%  Similarity=0.121  Sum_probs=93.7

Q ss_pred             CCCchhHHHHHHhhCCCC--CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc--------cchhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFF--DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS--------LAPMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~~d~~i~   70 (181)
                      +|||||||+++|++....  ... +.++.+........+  ...+.+|||||...+..        .+...+.++|++++
T Consensus         6 ~~~GKssl~~~l~~~~~~~~~~~-~~~t~~~~~~~~~~~--~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~   82 (157)
T cd01894           6 PNVGKSTLFNRLTGRRDAIVEDT-PGVTRDRIYGEAEWG--GREFILIDTGGIEPDDEGISKEIREQAELAIEEADVILF   82 (157)
T ss_pred             CCCCHHHHHHHHhCCcEEeecCC-CCceeCceeEEEEEC--CeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEEEE
Confidence            699999999999987532  222 222222223333333  35788999999876443        33456788999999


Q ss_pred             EEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHH
Q 030225           71 VYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        71 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l  149 (181)
                      |+|..++.+.... .+...+..   .+.|+++++||+|+......     .......+. +++++|++++.|+++++++|
T Consensus        83 v~d~~~~~~~~~~-~~~~~~~~---~~~piiiv~nK~D~~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l  153 (157)
T cd01894          83 VVDGREGLTPADE-EIAKYLRK---SKKPVILVVNKVDNIKEEDE-----AAEFYSLGFGEPIPISAEHGRGIGDLLDAI  153 (157)
T ss_pred             EEeccccCCccHH-HHHHHHHh---cCCCEEEEEECcccCChHHH-----HHHHHhcCCCCeEEEecccCCCHHHHHHHH
Confidence            9999875443332 12222322   35899999999998653221     222334565 78999999999999999999


Q ss_pred             HHH
Q 030225          150 AKR  152 (181)
Q Consensus       150 ~~~  152 (181)
                      ++.
T Consensus       154 ~~~  156 (157)
T cd01894         154 LEL  156 (157)
T ss_pred             Hhh
Confidence            875

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.89  E-value=1.2e-21  Score=149.17  Aligned_cols=153  Identities=22%  Similarity=0.202  Sum_probs=105.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh----hhccchhh---ccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER----YHSLAPMY---YRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~~---~~~~d~~i~v~d   73 (181)
                      |||||||||++|++........|.++.....-.+.++ ....|.+||+||...    ...+...|   ++.++++++|+|
T Consensus       167 pNaGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~-~~~~~~laD~PGliega~~~~gLg~~fLrhier~~llI~VID  245 (424)
T PRK12297        167 PNVGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETD-DGRSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVID  245 (424)
T ss_pred             CCCCHHHHHHHHHcCCCccccCCcceeceEEEEEEEe-CCceEEEEECCCCcccccccchHHHHHHHHHhhCCEEEEEEe
Confidence            8999999999999866432111211111111122222 135788999999632    22233333   456999999999


Q ss_pred             CCCh---hHHHHHHHHHHHHHHhCC--CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHH
Q 030225           74 ITSM---DSFERAKKWVQELQRQGN--PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYE  148 (181)
Q Consensus        74 ~~~~---~s~~~~~~~~~~~~~~~~--~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~  148 (181)
                      +++.   +.++....|.+.+..+..  ..+|.++|+||+|+..    ..+....+.+..+.+++++||++++|+++++++
T Consensus       246 ~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~----~~e~l~~l~~~l~~~i~~iSA~tgeGI~eL~~~  321 (424)
T PRK12297        246 MSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPE----AEENLEEFKEKLGPKVFPISALTGQGLDELLYA  321 (424)
T ss_pred             CCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcC----CHHHHHHHHHHhCCcEEEEeCCCCCCHHHHHHH
Confidence            9865   567777777777766532  4789999999999832    223445566666788999999999999999999


Q ss_pred             HHHHHHhhCC
Q 030225          149 IAKRLAEVNP  158 (181)
Q Consensus       149 l~~~~~~~~~  158 (181)
                      |.+.+.+...
T Consensus       322 L~~~l~~~~~  331 (424)
T PRK12297        322 VAELLEETPE  331 (424)
T ss_pred             HHHHHHhCcc
Confidence            9998876543

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

Probab=99.89  E-value=1.3e-23  Score=133.52  Aligned_cols=150  Identities=23%  Similarity=0.316  Sum_probs=110.3

Q ss_pred             CCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHH
Q 030225            2 GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFE   81 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   81 (181)
                      |+||||++.++.-++.+. ..|++|..    ...+.++++++++||.+|+-..++.|+.||.+.|++|||+|.+|.+...
T Consensus        28 GaGkttIlyrlqvgevvt-tkPtigfn----ve~v~yKNLk~~vwdLggqtSirPyWRcYy~dt~avIyVVDssd~dris  102 (182)
T KOG0072|consen   28 GAGKTTILYRLQVGEVVT-TKPTIGFN----VETVPYKNLKFQVWDLGGQTSIRPYWRCYYADTDAVIYVVDSSDRDRIS  102 (182)
T ss_pred             CCCeeEEEEEcccCcccc-cCCCCCcC----ccccccccccceeeEccCcccccHHHHHHhcccceEEEEEeccchhhhh
Confidence            556666666665555443 44777633    3345568899999999999999999999999999999999999988776


Q ss_pred             HHHHHHHH-HHHhCCCCceEEEEEeCCCCcccc---cCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           82 RAKKWVQE-LQRQGNPNLIMFLVANKVDLEEKR---KVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        82 ~~~~~~~~-~~~~~~~~~p~ivi~nK~D~~~~~---~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      .....+-. +.+...++..+++++||.|.....   ++....+....++.-+.++++||.+|+|+++.++||.+.+.++
T Consensus       103 ~a~~el~~mL~E~eLq~a~llv~anKqD~~~~~t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld~~~DWL~~~l~~~  181 (182)
T KOG0072|consen  103 IAGVELYSMLQEEELQHAKLLVFANKQDYSGALTRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLDPAMDWLQRPLKSR  181 (182)
T ss_pred             hhHHHHHHHhccHhhcCceEEEEeccccchhhhhHHHHHHHhChHHHhhheeEEEeeccccccCCcHHHHHHHHHHhcc
Confidence            65444444 444444678889999999985422   2222223333444557899999999999999999999988765

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.89  E-value=6e-22  Score=157.23  Aligned_cols=148  Identities=20%  Similarity=0.234  Sum_probs=108.0

Q ss_pred             CCCchhHHHHHHhhCC-------CCCccccc------eeeeEEEEEEEE-----CCeEEEEEEEeCCChhhhhccchhhc
Q 030225            1 MGTGKTSLVLRFVKGQ-------FFDFQEST------IGAAFFTQVLSL-----NEVTIKFDIWDTAGQERYHSLAPMYY   62 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~-------~~~~~~~t------~~~~~~~~~~~~-----~~~~~~~~i~D~~G~~~~~~~~~~~~   62 (181)
                      +++|||||+++|+...       +...+..+      .|.++....+.+     ++..+.++||||||+..|...+..++
T Consensus        12 ~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~dF~~~v~~~l   91 (595)
T TIGR01393        12 IDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSYEVSRSL   91 (595)
T ss_pred             CCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHHHHHHHHHHH
Confidence            5899999999998742       12222222      255555444333     45678999999999999999999999


Q ss_pred             cCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC---eEEEEecCCC
Q 030225           63 RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL---SFLETSAKSA  139 (181)
Q Consensus        63 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~---~~~~~Sa~~~  139 (181)
                      +.+|++|+|+|++++........|...+ .   .+.|+++++||+|+.+..  ......++.+..++   .++++||++|
T Consensus        92 ~~aD~aILVvDat~g~~~qt~~~~~~~~-~---~~ipiIiViNKiDl~~~~--~~~~~~el~~~lg~~~~~vi~vSAktG  165 (595)
T TIGR01393        92 AACEGALLLVDAAQGIEAQTLANVYLAL-E---NDLEIIPVINKIDLPSAD--PERVKKEIEEVIGLDASEAILASAKTG  165 (595)
T ss_pred             HhCCEEEEEecCCCCCCHhHHHHHHHHH-H---cCCCEEEEEECcCCCccC--HHHHHHHHHHHhCCCcceEEEeeccCC
Confidence            9999999999999876666655554433 2   357899999999985422  12223344454565   4899999999


Q ss_pred             CCHHHHHHHHHHHHH
Q 030225          140 HNVNELFYEIAKRLA  154 (181)
Q Consensus       140 ~gi~~~~~~l~~~~~  154 (181)
                      .|++++|++|.+.+.
T Consensus       166 ~GI~~Lle~I~~~lp  180 (595)
T TIGR01393       166 IGIEEILEAIVKRVP  180 (595)
T ss_pred             CCHHHHHHHHHHhCC
Confidence            999999999988764

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.

>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=99.89  E-value=2.8e-22  Score=132.92  Aligned_cols=140  Identities=18%  Similarity=0.217  Sum_probs=95.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhh------hccchhhc--cCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY------HSLAPMYY--RGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~------~~~~~~~~--~~~d~~i~v~   72 (181)
                      ||||||||+|+|.+........|..+++...-.+...+  ..+.++|+||--..      ......++  ...|++++|+
T Consensus         9 PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~--~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~Vv   86 (156)
T PF02421_consen    9 PNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGD--QQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVVV   86 (156)
T ss_dssp             TTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT--EEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEEEEE
T ss_pred             CCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecC--ceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEEC
Confidence            89999999999999886544445555555444555555  56779999994221      22233333  6899999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l  149 (181)
                      |+++.+.-   .....++.+.   +.|+++++||+|......... ....+.+..+++++.+||++++|++++++.|
T Consensus        87 Da~~l~r~---l~l~~ql~e~---g~P~vvvlN~~D~a~~~g~~i-d~~~Ls~~Lg~pvi~~sa~~~~g~~~L~~~I  156 (156)
T PF02421_consen   87 DATNLERN---LYLTLQLLEL---GIPVVVVLNKMDEAERKGIEI-DAEKLSERLGVPVIPVSARTGEGIDELKDAI  156 (156)
T ss_dssp             EGGGHHHH---HHHHHHHHHT---TSSEEEEEETHHHHHHTTEEE--HHHHHHHHTS-EEEEBTTTTBTHHHHHHHH
T ss_pred             CCCCHHHH---HHHHHHHHHc---CCCEEEEEeCHHHHHHcCCEE-CHHHHHHHhCCCEEEEEeCCCcCHHHHHhhC
Confidence            99875432   2333444443   689999999999866444332 3556667789999999999999999999875

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 ....

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.89  E-value=5.6e-22  Score=137.16  Aligned_cols=149  Identities=19%  Similarity=0.149  Sum_probs=103.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccce--------------eeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTI--------------GAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~--------------~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      +|+|||||+++|++.........+.              +.+..............+.+||+||...+...+..++..+|
T Consensus         8 ~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~d   87 (189)
T cd00881           8 VDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHEDFSSEVIRGLSVSD   87 (189)
T ss_pred             CCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcHHHHHHHHHHHHhcC
Confidence            6999999999999877655332211              12222222233333567899999999888888888999999


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc--CCHHHHHHHHHH--------------cCCe
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK--VKNEEGELYAQE--------------NGLS  130 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~--~~~~~~~~~~~~--------------~~~~  130 (181)
                      ++++|+|++++.... ...++..+..   .+.|+++++||+|+.....  ....+..+..+.              ...+
T Consensus        88 ~~i~v~d~~~~~~~~-~~~~~~~~~~---~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (189)
T cd00881          88 GAILVVDANEGVQPQ-TREHLRIARE---GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEEGTRNGLLVP  163 (189)
T ss_pred             EEEEEEECCCCCcHH-HHHHHHHHHH---CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhhhcccCCcce
Confidence            999999998765433 2233333332   4789999999999864221  112223333332              3478


Q ss_pred             EEEEecCCCCCHHHHHHHHHHHH
Q 030225          131 FLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       131 ~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      ++++||++|.|+++++++|.+.+
T Consensus       164 v~~~Sa~~g~gi~~l~~~l~~~l  186 (189)
T cd00881         164 IVPGSALTGIGVEELLEAIVEHL  186 (189)
T ss_pred             EEEEecccCcCHHHHHHHHHhhC
Confidence            89999999999999999998875

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.89  E-value=8e-22  Score=156.52  Aligned_cols=144  Identities=19%  Similarity=0.187  Sum_probs=104.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhcc------chhhc--cCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSL------APMYY--RGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~--~~~d~~i~v~   72 (181)
                      ||||||||+|+|.+........+.++.+.....+..++.  ++.+||+||+.++...      ...++  .++|++++|+
T Consensus         3 pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~~--~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~Vv   80 (591)
T TIGR00437         3 PNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQGE--DIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVV   80 (591)
T ss_pred             CCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECCe--EEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEEEe
Confidence            799999999999988764444455555554444555543  5789999998766543      23333  4789999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      |+++.+..   ..+..++.+   .+.|+++++||+|+.+...+. .+...+.+..+++++++||++|+|++++++++.+.
T Consensus        81 Dat~ler~---l~l~~ql~~---~~~PiIIVlNK~Dl~~~~~i~-~d~~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i~~~  153 (591)
T TIGR00437        81 DASNLERN---LYLTLQLLE---LGIPMILALNLVDEAEKKGIR-IDEEKLEERLGVPVVPTSATEGRGIERLKDAIRKA  153 (591)
T ss_pred             cCCcchhh---HHHHHHHHh---cCCCEEEEEehhHHHHhCCCh-hhHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHHH
Confidence            99875432   222333322   468999999999986544443 34567778889999999999999999999999875


Q ss_pred             H
Q 030225          153 L  153 (181)
Q Consensus       153 ~  153 (181)
                      +
T Consensus       154 ~  154 (591)
T TIGR00437       154 I  154 (591)
T ss_pred             h
Confidence            4

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.

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

Probab=99.88  E-value=1.2e-22  Score=133.10  Aligned_cols=151  Identities=24%  Similarity=0.294  Sum_probs=112.9

Q ss_pred             CCchhHHHHHHhhC---CC----CCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEEC
Q 030225            2 GTGKTSLVLRFVKG---QF----FDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDI   74 (181)
Q Consensus         2 ~~GKttLl~~l~~~---~~----~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~   74 (181)
                      ++|||||+.++...   .+    +....+|+|.....    ++-.+..+.+||.+|++..+++|..||..++++|+++|+
T Consensus        27 nAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~----i~v~~~~l~fwdlgGQe~lrSlw~~yY~~~H~ii~viDa  102 (197)
T KOG0076|consen   27 NAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGT----IEVCNAPLSFWDLGGQESLRSLWKKYYWLAHGIIYVIDA  102 (197)
T ss_pred             cCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecc----eeeccceeEEEEcCChHHHHHHHHHHHHHhceeEEeecC
Confidence            79999999987531   11    12233555543333    332366889999999999999999999999999999999


Q ss_pred             CChhHHHHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHH-HHHHHH---cCCeEEEEecCCCCCHHHHHHHH
Q 030225           75 TSMDSFERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEG-ELYAQE---NGLSFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        75 ~~~~s~~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~-~~~~~~---~~~~~~~~Sa~~~~gi~~~~~~l  149 (181)
                      +|++.|++....++.+.... ..++|+++.+||.|+.+..+..+... ...+..   ...++..|||.+|+||++...|+
T Consensus       103 ~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~~~~El~~~~~~~e~~~~rd~~~~pvSal~gegv~egi~w~  182 (197)
T KOG0076|consen  103 TDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAMEAAELDGVFGLAELIPRRDNPFQPVSALTGEGVKEGIEWL  182 (197)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhhhHHHHHHHhhhhhhcCCccCccccchhhhcccHHHHHHHH
Confidence            99999999877777765543 47899999999999865433222111 111222   24689999999999999999999


Q ss_pred             HHHHHhh
Q 030225          150 AKRLAEV  156 (181)
Q Consensus       150 ~~~~~~~  156 (181)
                      +..+..+
T Consensus       183 v~~~~kn  189 (197)
T KOG0076|consen  183 VKKLEKN  189 (197)
T ss_pred             HHHHhhc
Confidence            9988877

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

Probab=99.88  E-value=3.2e-21  Score=123.96  Aligned_cols=157  Identities=24%  Similarity=0.362  Sum_probs=128.3

Q ss_pred             CCchhHHHHHHhhCCCC--CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhh-hccchhhccCCcEEEEEEECCChh
Q 030225            2 GTGKTSLVLRFVKGQFF--DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY-HSLAPMYYRGAAAAVVVYDITSMD   78 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-~~~~~~~~~~~d~~i~v~d~~~~~   78 (181)
                      ++|||++|+.|.-++..  ..+.||+...|.......++..-.+.++||.|...+ ..+-++|++-+|++++|||..|++
T Consensus        19 ~VGKTaileQl~yg~~~~~~e~~pTiEDiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aDafVLVYs~~d~e   98 (198)
T KOG3883|consen   19 SVGKTAILEQLLYGNHVPGTELHPTIEDIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFADAFVLVYSPMDPE   98 (198)
T ss_pred             cccHHHHHHHHHhccCCCCCccccchhhheeEeeecCCChhheEEEeecccccCchhhhhHhHhccCceEEEEecCCCHH
Confidence            68999999999865543  345577776666655556666667899999998766 556688999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           79 SFERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        79 s~~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ||+.+..+-..+.... ...+|+++++||+|+.+.+++..+.+..|++.-.+.++++++.+...+-+.|..|...+.+.+
T Consensus        99 Sf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~eVta~dR~sL~epf~~l~~rl~~pq  178 (198)
T KOG3883|consen   99 SFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAKREKVKLWEVTAMDRPSLYEPFTYLASRLHQPQ  178 (198)
T ss_pred             HHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHHhhhheeEEEEEeccchhhhhHHHHHHHhccCCc
Confidence            9988765555554432 367999999999999988999999999999998999999999999999999999987766544


Q ss_pred             C
Q 030225          158 P  158 (181)
Q Consensus       158 ~  158 (181)
                      +
T Consensus       179 s  179 (198)
T KOG3883|consen  179 S  179 (198)
T ss_pred             c
Confidence            4

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=99.88  E-value=5.7e-22  Score=127.70  Aligned_cols=158  Identities=23%  Similarity=0.439  Sum_probs=136.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +..|||||+-++.++.+.+++..+.|+.+-.+.+.+.+..+.|.|||.+|++++..+.+....++-+++|+||++.+..+
T Consensus        29 ~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsvaIlFmFDLt~r~TL  108 (205)
T KOG1673|consen   29 AQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSVAILFMFDLTRRSTL  108 (205)
T ss_pred             cccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcEEEEEEEecCchHHH
Confidence            46899999999999999888889999999899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCccc-----ccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEK-----RKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~-----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ..+..|+.+.+.......| ++||+|.|+--.     .+....+++.+++..+.+++.+|+....|++.+|..+..++..
T Consensus       109 nSi~~WY~QAr~~NktAiP-ilvGTKyD~fi~lp~e~Q~~I~~qar~YAk~mnAsL~F~Sts~sINv~KIFK~vlAklFn  187 (205)
T KOG1673|consen  109 NSIKEWYRQARGLNKTAIP-ILVGTKYDLFIDLPPELQETISRQARKYAKVMNASLFFCSTSHSINVQKIFKIVLAKLFN  187 (205)
T ss_pred             HHHHHHHHHHhccCCccce-EEeccchHhhhcCCHHHHHHHHHHHHHHHHHhCCcEEEeeccccccHHHHHHHHHHHHhC
Confidence            9999999999887655555 556999996321     1122245678899999999999999999999999999988877


Q ss_pred             hCCC
Q 030225          156 VNPS  159 (181)
Q Consensus       156 ~~~~  159 (181)
                      ....
T Consensus       188 L~~t  191 (205)
T KOG1673|consen  188 LPWT  191 (205)
T ss_pred             Ccee
Confidence            6553

>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=99.88  E-value=5.5e-22  Score=127.59  Aligned_cols=107  Identities=30%  Similarity=0.563  Sum_probs=82.9

Q ss_pred             CCCchhHHHHHHhhCCCC--CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChh
Q 030225            1 MGTGKTSLVLRFVKGQFF--DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMD   78 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~   78 (181)
                      +|||||||+++|++..+.  ....++.+.++.............+.+||++|++.+...+..++.++|++++|||+++++
T Consensus         8 ~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv~D~s~~~   87 (119)
T PF08477_consen    8 SGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILVYDLSDPE   87 (119)
T ss_dssp             TTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEEEECCGHH
T ss_pred             CCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEEEcCCChH
Confidence            699999999999998876  223344445555566677777777999999999988888888899999999999999999


Q ss_pred             HHHHHHH---HHHHHHHhCCCCceEEEEEeCCC
Q 030225           79 SFERAKK---WVQELQRQGNPNLIMFLVANKVD  108 (181)
Q Consensus        79 s~~~~~~---~~~~~~~~~~~~~p~ivi~nK~D  108 (181)
                      +++++..   |+..+.... .+.|+++|+||.|
T Consensus        88 s~~~~~~~~~~l~~~~~~~-~~~piilv~nK~D  119 (119)
T PF08477_consen   88 SLEYLSQLLKWLKNIRKRD-KNIPIILVGNKSD  119 (119)
T ss_dssp             HHHHHHHHHHHHHHHHHHS-SCSEEEEEEE-TC
T ss_pred             HHHHHHHHHHHHHHHHccC-CCCCEEEEEeccC
Confidence            9998754   455555443 5699999999998

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.88  E-value=1.3e-21  Score=150.55  Aligned_cols=142  Identities=19%  Similarity=0.207  Sum_probs=104.2

Q ss_pred             CCCchhHHHHHHhhCCC--CCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhcc--------chhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQF--FDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSL--------APMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~~~d~~i~   70 (181)
                      ||||||||+|+|++...  ...+ +.++.++....+.+++.  .+.+|||||...+...        ...+++++|++++
T Consensus       212 ~nvGKSSLiN~L~~~~~aivs~~-pgtTrd~~~~~i~~~g~--~v~l~DTaG~~~~~~~ie~~gi~~~~~~~~~aD~il~  288 (442)
T TIGR00450       212 PNVGKSSLLNALLKQDRAIVSDI-KGTTRDVVEGDFELNGI--LIKLLDTAGIREHADFVERLGIEKSFKAIKQADLVIY  288 (442)
T ss_pred             CCCcHHHHHHHHhCCCCcccCCC-CCcEEEEEEEEEEECCE--EEEEeeCCCcccchhHHHHHHHHHHHHHHhhCCEEEE
Confidence            79999999999998653  2322 44444555555566654  5689999997543321        2457889999999


Q ss_pred             EEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHH
Q 030225           71 VYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        71 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      |+|++++.+++..  |+..+..   .++|+++|+||+|+...      +...+.+..+.+++++||++ .|++++|+.|.
T Consensus       289 V~D~s~~~s~~~~--~l~~~~~---~~~piIlV~NK~Dl~~~------~~~~~~~~~~~~~~~vSak~-~gI~~~~~~L~  356 (442)
T TIGR00450       289 VLDASQPLTKDDF--LIIDLNK---SKKPFILVLNKIDLKIN------SLEFFVSSKVLNSSNLSAKQ-LKIKALVDLLT  356 (442)
T ss_pred             EEECCCCCChhHH--HHHHHhh---CCCCEEEEEECccCCCc------chhhhhhhcCCceEEEEEec-CCHHHHHHHHH
Confidence            9999988877664  6655532   46799999999998542      12344566778899999998 69999999999


Q ss_pred             HHHHhhC
Q 030225          151 KRLAEVN  157 (181)
Q Consensus       151 ~~~~~~~  157 (181)
                      +.+.+.-
T Consensus       357 ~~i~~~~  363 (442)
T TIGR00450       357 QKINAFY  363 (442)
T ss_pred             HHHHHHh
Confidence            9887753

TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.88  E-value=6.8e-22  Score=154.05  Aligned_cols=145  Identities=26%  Similarity=0.233  Sum_probs=97.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh--------hhccchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER--------YHSLAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~d~~i~v~   72 (181)
                      ||||||||+|+|++...... .++.|+++......+......+.+|||||...        +...+..+++++|++|+|+
T Consensus        47 ~nvGKSSL~nrl~~~~~~~v-~~~~gvT~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~il~Vv  125 (472)
T PRK03003         47 PNVGKSTLVNRILGRREAVV-EDVPGVTRDRVSYDAEWNGRRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADAVLFVV  125 (472)
T ss_pred             CCCCHHHHHHHHhCcCcccc-cCCCCCCEeeEEEEEEECCcEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEEEEEE
Confidence            79999999999998765321 23444433333332222334678999999652        3334556788999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      |++++.++.. ..+...+..   .++|+++|+||+|+....   .+....+.  .++ ..+++||++|.|+.++|++|++
T Consensus       126 D~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~~~~---~~~~~~~~--~g~~~~~~iSA~~g~gi~eL~~~i~~  196 (472)
T PRK03003        126 DATVGATATD-EAVARVLRR---SGKPVILAANKVDDERGE---ADAAALWS--LGLGEPHPVSALHGRGVGDLLDAVLA  196 (472)
T ss_pred             ECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCCccc---hhhHHHHh--cCCCCeEEEEcCCCCCcHHHHHHHHh
Confidence            9998755432 233344432   468999999999985421   12222222  343 3579999999999999999998


Q ss_pred             HHHh
Q 030225          152 RLAE  155 (181)
Q Consensus       152 ~~~~  155 (181)
                      .+.+
T Consensus       197 ~l~~  200 (472)
T PRK03003        197 ALPE  200 (472)
T ss_pred             hccc
Confidence            8755

>PRK11058 GTPase HflX; Provisional

Probab=99.88  E-value=1.6e-21  Score=149.31  Aligned_cols=150  Identities=19%  Similarity=0.198  Sum_probs=102.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhh--hccch------hhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY--HSLAP------MYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--~~~~~------~~~~~~d~~i~v~   72 (181)
                      ||||||||+|+|.+........+..+.+.....+...+. ..+.+|||+|....  ..++.      ..+.++|++++|+
T Consensus       206 ~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~ADlIL~Vv  284 (426)
T PRK11058        206 TNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV-GETVLADTVGFIRHLPHDLVAAFKATLQETRQATLLLHVV  284 (426)
T ss_pred             CCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC-CeEEEEecCcccccCCHHHHHHHHHHHHHhhcCCEEEEEE
Confidence            799999999999987654333333334443444444442 25679999997321  22222      3368899999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCe-EEEEecCCCCCHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLS-FLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      |++++.+++.+..|...+......+.|+++|+||+|+.....   ....  ....+.+ ++++||++|+|+++++++|.+
T Consensus       285 DaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~~---~~~~--~~~~~~~~~v~ISAktG~GIdeL~e~I~~  359 (426)
T PRK11058        285 DAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDFE---PRID--RDEENKPIRVWLSAQTGAGIPLLFQALTE  359 (426)
T ss_pred             eCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCchh---HHHH--HHhcCCCceEEEeCCCCCCHHHHHHHHHH
Confidence            999988877776555555444445789999999999854211   1111  1123555 588999999999999999999


Q ss_pred             HHHhh
Q 030225          152 RLAEV  156 (181)
Q Consensus       152 ~~~~~  156 (181)
                      .+...
T Consensus       360 ~l~~~  364 (426)
T PRK11058        360 RLSGE  364 (426)
T ss_pred             Hhhhc
Confidence            88543

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.88  E-value=7.7e-22  Score=132.90  Aligned_cols=133  Identities=18%  Similarity=0.192  Sum_probs=92.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh-----hhhccchhhccCCcEEEEEEECC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE-----RYHSLAPMYYRGAAAAVVVYDIT   75 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~-----~~~~~~~~~~~~~d~~i~v~d~~   75 (181)
                      ||+|||||+++|.+... . ...+.++.       +...    .+||+||..     .+..+ ...++++|++++|+|++
T Consensus        10 ~~~GKstl~~~l~~~~~-~-~~~~~~v~-------~~~~----~~iDtpG~~~~~~~~~~~~-~~~~~~ad~il~v~d~~   75 (158)
T PRK15467         10 VGAGKTTLFNALQGNYT-L-ARKTQAVE-------FNDK----GDIDTPGEYFSHPRWYHAL-ITTLQDVDMLIYVHGAN   75 (158)
T ss_pred             CCCCHHHHHHHHcCCCc-c-CccceEEE-------ECCC----CcccCCccccCCHHHHHHH-HHHHhcCCEEEEEEeCC
Confidence            79999999999876432 1 12333222       2222    279999972     22222 23478999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC--eEEEEecCCCCCHHHHHHHHHHHH
Q 030225           76 SMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL--SFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        76 ~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~--~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +.+++.  ..|+..+    ..++|+++++||+|+.+   ...+....++.+.++  +++++||++++|++++|+++.+.+
T Consensus        76 ~~~s~~--~~~~~~~----~~~~~ii~v~nK~Dl~~---~~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi~~l~~~l~~~~  146 (158)
T PRK15467         76 DPESRL--PAGLLDI----GVSKRQIAVISKTDMPD---ADVAATRKLLLETGFEEPIFELNSHDPQSVQQLVDYLASLT  146 (158)
T ss_pred             Cccccc--CHHHHhc----cCCCCeEEEEEccccCc---ccHHHHHHHHHHcCCCCCEEEEECCCccCHHHHHHHHHHhc
Confidence            877652  2343332    24678999999999854   234556677777774  899999999999999999998877


Q ss_pred             Hhh
Q 030225          154 AEV  156 (181)
Q Consensus       154 ~~~  156 (181)
                      .+.
T Consensus       147 ~~~  149 (158)
T PRK15467        147 KQE  149 (158)
T ss_pred             hhh
Confidence            554

>cd01889 SelB_euk SelB subfamily

Probab=99.88  E-value=1.1e-21  Score=136.37  Aligned_cols=150  Identities=21%  Similarity=0.142  Sum_probs=94.1

Q ss_pred             CCCchhHHHHHHhhC----CCCC---cccc--ceeeeEEEEEEE----------ECCeEEEEEEEeCCChhhhhccchhh
Q 030225            1 MGTGKTSLVLRFVKG----QFFD---FQES--TIGAAFFTQVLS----------LNEVTIKFDIWDTAGQERYHSLAPMY   61 (181)
Q Consensus         1 ~~~GKttLl~~l~~~----~~~~---~~~~--t~~~~~~~~~~~----------~~~~~~~~~i~D~~G~~~~~~~~~~~   61 (181)
                      +|+|||||+++|+..    .+..   ...+  |++..+....+.          ..+..+.+.+||+||+..+.......
T Consensus         9 ~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~   88 (192)
T cd01889           9 VDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHASLIRTIIGG   88 (192)
T ss_pred             CCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHHHHHHHHHH
Confidence            689999999999973    1111   1112  223222222222          12346789999999987654433344


Q ss_pred             ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc--CCHHHHHHHHH-------HcCCeEE
Q 030225           62 YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK--VKNEEGELYAQ-------ENGLSFL  132 (181)
Q Consensus        62 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~--~~~~~~~~~~~-------~~~~~~~  132 (181)
                      ...+|++++|+|+++.........+.  +...  .+.|+++++||+|+.....  ...++......       ..+++++
T Consensus        89 ~~~~d~vi~VvD~~~~~~~~~~~~~~--~~~~--~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi  164 (192)
T cd01889          89 AQIIDLMLLVVDATKGIQTQTAECLV--IGEI--LCKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKTRFKNSPII  164 (192)
T ss_pred             HhhCCEEEEEEECCCCccHHHHHHHH--HHHH--cCCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhcCcCCCCEE
Confidence            56789999999998754333322221  1222  2569999999999863221  11222222111       1357899


Q ss_pred             EEecCCCCCHHHHHHHHHHHHH
Q 030225          133 ETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       133 ~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      ++||++++|+++++++|.+++.
T Consensus       165 ~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         165 PVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             EEeccCCCCHHHHHHHHHhccc
Confidence            9999999999999999988764

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

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.88  E-value=3.5e-21  Score=148.55  Aligned_cols=155  Identities=19%  Similarity=0.185  Sum_probs=101.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh----hhcc---chhhccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER----YHSL---APMYYRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~---~~~~~~~~d~~i~v~d   73 (181)
                      ||||||||+++|.+........|  +++.......+.....+|.+||+||...    ...+   ....+..+|++|+|+|
T Consensus       168 PNAGKSTLln~Ls~akpkIadyp--fTTl~P~lGvv~~~~~~f~laDtPGliegas~g~gLg~~fLrhieradvLv~VVD  245 (500)
T PRK12296        168 PSAGKSSLISALSAAKPKIADYP--FTTLVPNLGVVQAGDTRFTVADVPGLIPGASEGKGLGLDFLRHIERCAVLVHVVD  245 (500)
T ss_pred             CCCCHHHHHHHHhcCCccccccC--cccccceEEEEEECCeEEEEEECCCCccccchhhHHHHHHHHHHHhcCEEEEEEC
Confidence            89999999999998654322112  2222223322333335789999999521    1111   1224678999999999


Q ss_pred             CCCh----hHHHHHHHHHHHHHHhC-----------CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCC
Q 030225           74 ITSM----DSFERAKKWVQELQRQG-----------NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKS  138 (181)
Q Consensus        74 ~~~~----~s~~~~~~~~~~~~~~~-----------~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  138 (181)
                      +++.    +.+..+..|...+..+.           ...+|.++|+||+|+.+..... +.........+++++++||++
T Consensus       246 ~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el~-e~l~~~l~~~g~~Vf~ISA~t  324 (500)
T PRK12296        246 CATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDARELA-EFVRPELEARGWPVFEVSAAS  324 (500)
T ss_pred             CcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHHH-HHHHHHHHHcCCeEEEEECCC
Confidence            9853    34455554544443332           2468999999999986543321 222333445678999999999


Q ss_pred             CCCHHHHHHHHHHHHHhhCC
Q 030225          139 AHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus       139 ~~gi~~~~~~l~~~~~~~~~  158 (181)
                      ++|+++++++|.+.+.....
T Consensus       325 geGLdEL~~~L~ell~~~r~  344 (500)
T PRK12296        325 REGLRELSFALAELVEEARA  344 (500)
T ss_pred             CCCHHHHHHHHHHHHHhhhc
Confidence            99999999999998877543

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

Probab=99.88  E-value=1.4e-21  Score=131.23  Aligned_cols=138  Identities=18%  Similarity=0.130  Sum_probs=96.9

Q ss_pred             CCCchhHHHHHHhhCCCCC-ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhcc--------chhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFD-FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSL--------APMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~~~d~~i~v   71 (181)
                      ||+|||||++++.+..... ...+.++.+.....+..+  ..++.+||+||...+...        ...++..+|++++|
T Consensus        10 ~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v   87 (157)
T cd04164          10 PNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIG--GIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFV   87 (157)
T ss_pred             CCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeC--CEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEE
Confidence            6999999999999876422 112333333333333333  457889999997543221        23467789999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           72 YDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +|++++.+......+..      ....|+++++||+|+.+....       .....+.+++++||+++.|+++++++|.+
T Consensus        88 ~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~D~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  154 (157)
T cd04164          88 IDASRGLDEEDLEILEL------PADKPIIVVLNKSDLLPDSEL-------LSLLAGKPIIAISAKTGEGLDELKEALLE  154 (157)
T ss_pred             EECCCCCCHHHHHHHHh------hcCCCEEEEEEchhcCCcccc-------ccccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            99998777665544322      357899999999998654332       33444678999999999999999999987


Q ss_pred             HH
Q 030225          152 RL  153 (181)
Q Consensus       152 ~~  153 (181)
                      .+
T Consensus       155 ~~  156 (157)
T cd04164         155 LA  156 (157)
T ss_pred             hh
Confidence            54

It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.87  E-value=5.8e-21  Score=151.05  Aligned_cols=144  Identities=19%  Similarity=0.173  Sum_probs=103.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +++|||||+++|.+..+.....+.++.++....+..++.. .+.||||||++.|..++...+..+|++|+|+|+++....
T Consensus        96 vd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~~-~i~~iDTPGhe~F~~~r~rga~~aDiaILVVda~dgv~~  174 (587)
T TIGR00487        96 VDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDGK-MITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGVMP  174 (587)
T ss_pred             CCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCCc-EEEEEECCCCcchhhHHHhhhccCCEEEEEEECCCCCCH
Confidence            5899999999999988776655555555555555554332 788999999999999998899999999999998864221


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC---------CeEEEEecCCCCCHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG---------LSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +. ...+....   ..+.|+++++||+|+.+.   ..++....+...+         .+++++||++|+|+.+++++|..
T Consensus       175 qT-~e~i~~~~---~~~vPiIVviNKiDl~~~---~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAktGeGI~eLl~~I~~  247 (587)
T TIGR00487       175 QT-IEAISHAK---AANVPIIVAINKIDKPEA---NPDRVKQELSEYGLVPEDWGGDTIFVPVSALTGDGIDELLDMILL  247 (587)
T ss_pred             hH-HHHHHHHH---HcCCCEEEEEECcccccC---CHHHHHHHHHHhhhhHHhcCCCceEEEEECCCCCChHHHHHhhhh
Confidence            11 12222222   246899999999998542   2233333333222         47999999999999999999975


Q ss_pred             H
Q 030225          152 R  152 (181)
Q Consensus       152 ~  152 (181)
                      .
T Consensus       248 ~  248 (587)
T TIGR00487       248 Q  248 (587)
T ss_pred             h
Confidence            3

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.87  E-value=2.3e-21  Score=151.10  Aligned_cols=152  Identities=22%  Similarity=0.184  Sum_probs=102.7

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCCh----------hhhhccc-hhhccCCcEE
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ----------ERYHSLA-PMYYRGAAAA   68 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~-~~~~~~~d~~   68 (181)
                      ||||||||+++|++.... ....++++.+.....+..++.  .+.+|||||.          +.+..+. ..+++++|++
T Consensus       220 ~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~--~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~ad~v  297 (472)
T PRK03003        220 PNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGK--TWRFVDTAGLRRRVKQASGHEYYASLRTHAAIEAAEVA  297 (472)
T ss_pred             CCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCE--EEEEEECCCccccccccchHHHHHHHHHHHHHhcCCEE
Confidence            799999999999987653 223344444444445556655  4569999995          2233222 3457899999


Q ss_pred             EEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc--CCHHHHHH-HHHHcCCeEEEEecCCCCCHHHH
Q 030225           69 VVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK--VKNEEGEL-YAQENGLSFLETSAKSAHNVNEL  145 (181)
Q Consensus        69 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~--~~~~~~~~-~~~~~~~~~~~~Sa~~~~gi~~~  145 (181)
                      ++|+|++++.++..+. ++..+..   .+.|+++++||+|+.+...  ....+... +.....++++++||++|.|++++
T Consensus       298 ilV~Da~~~~s~~~~~-~~~~~~~---~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~SAk~g~gv~~l  373 (472)
T PRK03003        298 VVLIDASEPISEQDQR-VLSMVIE---AGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNISAKTGRAVDKL  373 (472)
T ss_pred             EEEEeCCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEEEECCCCCCHHHH
Confidence            9999999987777653 4444433   4689999999999964211  01111111 12112368999999999999999


Q ss_pred             HHHHHHHHHhhCC
Q 030225          146 FYEIAKRLAEVNP  158 (181)
Q Consensus       146 ~~~l~~~~~~~~~  158 (181)
                      |+.+.+.+.+...
T Consensus       374 f~~i~~~~~~~~~  386 (472)
T PRK03003        374 VPALETALESWDT  386 (472)
T ss_pred             HHHHHHHHHHhcc
Confidence            9999987765443

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.87  E-value=8.9e-22  Score=152.10  Aligned_cols=139  Identities=20%  Similarity=0.195  Sum_probs=100.8

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhcc--------chhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSL--------APMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~~~d~~i~v   71 (181)
                      ||+|||||+|+|.+.... ....+.++.++....+..++  ..+.+|||||...+...        ...++.++|++++|
T Consensus       224 ~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~i~l~DT~G~~~~~~~ie~~gi~~~~~~~~~aD~il~V  301 (449)
T PRK05291        224 PNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDG--IPLRLIDTAGIRETDDEVEKIGIERSREAIEEADLVLLV  301 (449)
T ss_pred             CCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECC--eEEEEEeCCCCCCCccHHHHHHHHHHHHHHHhCCEEEEE
Confidence            799999999999987642 22233334444444555555  46789999997644321        23467899999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           72 YDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +|++++.+++....|..      ..+.|+++|+||+|+.......        ...+.+++++||++|.|+++++++|.+
T Consensus       302 vD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~~~~~~~--------~~~~~~~i~iSAktg~GI~~L~~~L~~  367 (449)
T PRK05291        302 LDASEPLTEEDDEILEE------LKDKPVIVVLNKADLTGEIDLE--------EENGKPVIRISAKTGEGIDELREAIKE  367 (449)
T ss_pred             ecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhccccchhh--------hccCCceEEEEeeCCCCHHHHHHHHHH
Confidence            99998877765544432      3568999999999986432221        334578999999999999999999999


Q ss_pred             HHHh
Q 030225          152 RLAE  155 (181)
Q Consensus       152 ~~~~  155 (181)
                      .+..
T Consensus       368 ~l~~  371 (449)
T PRK05291        368 LAFG  371 (449)
T ss_pred             HHhh
Confidence            8865

>PRK00089 era GTPase Era; Reviewed

Probab=99.87  E-value=2.1e-21  Score=143.17  Aligned_cols=152  Identities=20%  Similarity=0.144  Sum_probs=99.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh--------ccchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH--------SLAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~~~~~~d~~i~v~   72 (181)
                      ||||||||+|+|++........ ...++.............++.+|||||.....        ......+.++|++++|+
T Consensus        14 pn~GKSTLin~L~g~~~~~vs~-~~~tt~~~i~~i~~~~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~il~vv   92 (292)
T PRK00089         14 PNVGKSTLLNALVGQKISIVSP-KPQTTRHRIRGIVTEDDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLVLFVV   92 (292)
T ss_pred             CCCCHHHHHHHHhCCceeecCC-CCCcccccEEEEEEcCCceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCEEEEEE
Confidence            7999999999999887643321 12222212111122233688999999964321        22334678999999999


Q ss_pred             ECCChhHHHHH-HHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHHHHH
Q 030225           73 DITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        73 d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      |+++.  +... ...+..+.   ..+.|+++++||+|+.............+.+..+ ..++++||+++.|+++++++|.
T Consensus        93 d~~~~--~~~~~~~i~~~l~---~~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~gv~~L~~~L~  167 (292)
T PRK00089         93 DADEK--IGPGDEFILEKLK---KVKTPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKGDNVDELLDVIA  167 (292)
T ss_pred             eCCCC--CChhHHHHHHHHh---hcCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCCCCHHHHHHHHH
Confidence            99872  2222 22222332   2368999999999996433333334445554444 6799999999999999999999


Q ss_pred             HHHHhhCC
Q 030225          151 KRLAEVNP  158 (181)
Q Consensus       151 ~~~~~~~~  158 (181)
                      +.+.+..+
T Consensus       168 ~~l~~~~~  175 (292)
T PRK00089        168 KYLPEGPP  175 (292)
T ss_pred             HhCCCCCC
Confidence            98866543

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.87  E-value=9.2e-21  Score=143.62  Aligned_cols=156  Identities=19%  Similarity=0.171  Sum_probs=104.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh----ccc---hhhccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH----SLA---PMYYRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~----~~~---~~~~~~~d~~i~v~d   73 (181)
                      ||||||||+|+|.+.+......|.++.....-.+... ....+.++|+||...-.    .+.   ...++.+|++++|+|
T Consensus       168 PNaGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~-~~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL~VVD  246 (390)
T PRK12298        168 PNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVD-DERSFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLLHLID  246 (390)
T ss_pred             CCCCHHHHHHHHhCCcccccCCCCCccCcEEEEEEeC-CCcEEEEEeCCCccccccchhhHHHHHHHHHHhCCEEEEEec
Confidence            8999999999999866422221222211112222332 22358899999964211    111   234788999999999


Q ss_pred             CC---ChhHHHHHHHHHHHHHHhCC--CCceEEEEEeCCCCcccccCCHHHHHHHHHHcC--CeEEEEecCCCCCHHHHH
Q 030225           74 IT---SMDSFERAKKWVQELQRQGN--PNLIMFLVANKVDLEEKRKVKNEEGELYAQENG--LSFLETSAKSAHNVNELF  146 (181)
Q Consensus        74 ~~---~~~s~~~~~~~~~~~~~~~~--~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~~~  146 (181)
                      ++   +.+.++....|++.+.....  ..+|.++|+||+|+.....+ .+....+.+..+  .+++.+||+++.|+++++
T Consensus       247 ~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el-~~~l~~l~~~~~~~~~Vi~ISA~tg~GIdeLl  325 (390)
T PRK12298        247 IAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEA-EERAKAIVEALGWEGPVYLISAASGLGVKELC  325 (390)
T ss_pred             cCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHH-HHHHHHHHHHhCCCCCEEEEECCCCcCHHHHH
Confidence            98   45667777777777766431  46899999999998643322 233344444444  478999999999999999


Q ss_pred             HHHHHHHHhhCC
Q 030225          147 YEIAKRLAEVNP  158 (181)
Q Consensus       147 ~~l~~~~~~~~~  158 (181)
                      ++|.+.+.+..+
T Consensus       326 ~~I~~~L~~~~~  337 (390)
T PRK12298        326 WDLMTFIEENPR  337 (390)
T ss_pred             HHHHHHhhhCcc
Confidence            999998877543

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

Probab=99.87  E-value=6e-22  Score=125.67  Aligned_cols=147  Identities=20%  Similarity=0.214  Sum_probs=111.1

Q ss_pred             CCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHH
Q 030225            2 GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFE   81 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   81 (181)
                      |+||||||..|.+..... ..||.|.....  +..+ +.+++++||++|+...+..|..||.+.|++|||+|.+|...|+
T Consensus        27 nAGKTT~LKqL~sED~~h-ltpT~GFn~k~--v~~~-g~f~LnvwDiGGqr~IRpyWsNYyenvd~lIyVIDS~D~krfe  102 (185)
T KOG0074|consen   27 NAGKTTFLKQLKSEDPRH-LTPTNGFNTKK--VEYD-GTFHLNVWDIGGQRGIRPYWSNYYENVDGLIYVIDSTDEKRFE  102 (185)
T ss_pred             CCcchhHHHHHccCChhh-ccccCCcceEE--Eeec-CcEEEEEEecCCccccchhhhhhhhccceEEEEEeCCchHhHH
Confidence            799999999998776544 34777754433  3333 4479999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH-hCCCCceEEEEEeCCCCcccccCCHHHH---HHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           82 RAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG---ELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        82 ~~~~~~~~~~~-~~~~~~p~ivi~nK~D~~~~~~~~~~~~---~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      ++-..+-++.+ ......|+++.+||.|+.....+.....   ..-.+.+.+.+.++||.+++|+.+..+|+...
T Consensus       103 E~~~el~ELleeeKl~~vpvlIfankQdlltaa~~eeia~klnl~~lrdRswhIq~csals~eg~~dg~~wv~sn  177 (185)
T KOG0074|consen  103 EISEELVELLEEEKLAEVPVLIFANKQDLLTAAKVEEIALKLNLAGLRDRSWHIQECSALSLEGSTDGSDWVQSN  177 (185)
T ss_pred             HHHHHHHHHhhhhhhhccceeehhhhhHHHhhcchHHHHHhcchhhhhhceEEeeeCccccccCccCcchhhhcC
Confidence            98666666555 3347899999999999865333221111   11222334678999999999999999998653

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.87  E-value=6.2e-21  Score=151.35  Aligned_cols=149  Identities=19%  Similarity=0.199  Sum_probs=109.5

Q ss_pred             CCCchhHHHHHHhhC---CCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCCh
Q 030225            1 MGTGKTSLVLRFVKG---QFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSM   77 (181)
Q Consensus         1 ~~~GKttLl~~l~~~---~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   77 (181)
                      +++|||||+++|.+.   .+.+++.++++.+.....+..++  ..+.+||+||++.|...+...+.++|++++|+|++++
T Consensus         9 ~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVDa~~G   86 (581)
T TIGR00475         9 VDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEG   86 (581)
T ss_pred             CCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCC
Confidence            589999999999963   34455556666666555555555  6889999999999988888889999999999999873


Q ss_pred             ---hHHHHHHHHHHHHHHhCCCCce-EEEEEeCCCCcccccC--CHHHHHHHHHHc----CCeEEEEecCCCCCHHHHHH
Q 030225           78 ---DSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRKV--KNEEGELYAQEN----GLSFLETSAKSAHNVNELFY  147 (181)
Q Consensus        78 ---~s~~~~~~~~~~~~~~~~~~~p-~ivi~nK~D~~~~~~~--~~~~~~~~~~~~----~~~~~~~Sa~~~~gi~~~~~  147 (181)
                         .+.+.    +..+..   .+.| +++++||+|+.+....  ..++...++...    +++++++||++|+|++++++
T Consensus        87 ~~~qT~eh----l~il~~---lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG~GI~eL~~  159 (581)
T TIGR00475        87 VMTQTGEH----LAVLDL---LGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAKTGQGIGELKK  159 (581)
T ss_pred             CcHHHHHH----HHHHHH---cCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCCCCCCchhHHH
Confidence               33332    322322   2456 9999999999653321  223444555544    47899999999999999999


Q ss_pred             HHHHHHHhhCC
Q 030225          148 EIAKRLAEVNP  158 (181)
Q Consensus       148 ~l~~~~~~~~~  158 (181)
                      +|.+.+....+
T Consensus       160 ~L~~l~~~~~~  170 (581)
T TIGR00475       160 ELKNLLESLDI  170 (581)
T ss_pred             HHHHHHHhCCC
Confidence            99887766543

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.87  E-value=6.6e-21  Score=147.45  Aligned_cols=148  Identities=20%  Similarity=0.159  Sum_probs=96.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEE--EEEEECCeEEEEEEEeCCChhhhhcc-----------chhhccCCcE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFT--QVLSLNEVTIKFDIWDTAGQERYHSL-----------APMYYRGAAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~--~~~~~~~~~~~~~i~D~~G~~~~~~~-----------~~~~~~~~d~   67 (181)
                      ||+|||||+++|++....... +..|++...  ..+..++.  .+.+|||||...+...           ...+++.+|+
T Consensus       181 ~~~GKSsLin~l~~~~~~~~~-~~~gtt~~~~~~~~~~~~~--~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~  257 (429)
T TIGR03594       181 PNVGKSTLVNALLGEERVIVS-DIAGTTRDSIDIPFERNGK--KYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADV  257 (429)
T ss_pred             CCCCHHHHHHHHHCCCeeecC-CCCCceECcEeEEEEECCc--EEEEEECCCccccccchhhHHHHHHHHHHHHHHhCCE
Confidence            799999999999987632211 222333333  23334443  6789999996443221           1246789999


Q ss_pred             EEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHH-H----cCCeEEEEecCCCCCH
Q 030225           68 AVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQ-E----NGLSFLETSAKSAHNV  142 (181)
Q Consensus        68 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~-~----~~~~~~~~Sa~~~~gi  142 (181)
                      +++|+|++++.+.... .++..+..   .+.|+++++||+|+.+... ..++...... .    .+++++++||++|.|+
T Consensus       258 ~ilV~D~~~~~~~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~vi~~SA~~g~~v  332 (429)
T TIGR03594       258 VLLVLDATEGITEQDL-RIAGLILE---AGKALVIVVNKWDLVKDEK-TREEFKKELRRKLPFLDFAPIVFISALTGQGV  332 (429)
T ss_pred             EEEEEECCCCccHHHH-HHHHHHHH---cCCcEEEEEECcccCCCHH-HHHHHHHHHHHhcccCCCCceEEEeCCCCCCH
Confidence            9999999987665543 23333333   3689999999999862111 1122222222 1    2478999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q 030225          143 NELFYEIAKRLAEV  156 (181)
Q Consensus       143 ~~~~~~l~~~~~~~  156 (181)
                      +++|+++...+.+.
T Consensus       333 ~~l~~~i~~~~~~~  346 (429)
T TIGR03594       333 DKLLDAIDEVYENA  346 (429)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999877654

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.

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

Probab=99.86  E-value=6.2e-21  Score=133.57  Aligned_cols=113  Identities=15%  Similarity=0.153  Sum_probs=78.1

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC--CHH
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV--KNE  118 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~--~~~  118 (181)
                      .++.|||+||+..+...+...+.++|++++|+|++++.........+..+...  ..+|+++++||+|+.+....  ..+
T Consensus        83 ~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~--~~~~iiivvNK~Dl~~~~~~~~~~~  160 (203)
T cd01888          83 RHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIM--GLKHIIIVQNKIDLVKEEQALENYE  160 (203)
T ss_pred             cEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHc--CCCcEEEEEEchhccCHHHHHHHHH
Confidence            67899999999988887777888999999999998742111112222333222  23578999999998642211  112


Q ss_pred             HHHHHHHHc---CCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          119 EGELYAQEN---GLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       119 ~~~~~~~~~---~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +...+....   +++++++||++|+|+++++++|.+.+.+
T Consensus       161 ~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l~~  200 (203)
T cd01888         161 QIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKIPT  200 (203)
T ss_pred             HHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhCCC
Confidence            233333332   5789999999999999999999875543

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

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.86  E-value=1.9e-20  Score=130.39  Aligned_cols=148  Identities=20%  Similarity=0.183  Sum_probs=98.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCCh----------hhhhccchhhccCC---cE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ----------ERYHSLAPMYYRGA---AA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~~~~~~~~---d~   67 (181)
                      +|+|||||+++|++..+...+.++.+.+........   ...+.+||+||.          ..+..+...+++.+   ++
T Consensus        33 ~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (196)
T PRK00454         33 SNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---NDKLRLVDLPGYGYAKVSKEEKEKWQKLIEEYLRTRENLKG  109 (196)
T ss_pred             CCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---CCeEEEeCCCCCCCcCCCchHHHHHHHHHHHHHHhCccceE
Confidence            699999999999988765556666665554443333   257889999994          33444445555544   67


Q ss_pred             EEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc--CCHHHHHHHHHHcCCeEEEEecCCCCCHHHH
Q 030225           68 AVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK--VKNEEGELYAQENGLSFLETSAKSAHNVNEL  145 (181)
Q Consensus        68 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~  145 (181)
                      +++++|.+++.....  .++......  .+.|+++++||+|+....+  ...++...........++++||+++.|++++
T Consensus       110 ~~~v~d~~~~~~~~~--~~i~~~l~~--~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~Sa~~~~gi~~l  185 (196)
T PRK00454        110 VVLLIDSRHPLKELD--LQMIEWLKE--YGIPVLIVLTKADKLKKGERKKQLKKVRKALKFGDDEVILFSSLKKQGIDEL  185 (196)
T ss_pred             EEEEEecCCCCCHHH--HHHHHHHHH--cCCcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCCceEEEEcCCCCCHHHH
Confidence            888999876543322  111122222  3678999999999854322  1122233444444678999999999999999


Q ss_pred             HHHHHHHHHh
Q 030225          146 FYEIAKRLAE  155 (181)
Q Consensus       146 ~~~l~~~~~~  155 (181)
                      ++.|.+.+.+
T Consensus       186 ~~~i~~~~~~  195 (196)
T PRK00454        186 RAAIAKWLAE  195 (196)
T ss_pred             HHHHHHHhcC
Confidence            9999876643

>cd00880 Era_like Era (E

Probab=99.85  E-value=1.9e-20  Score=125.63  Aligned_cols=147  Identities=20%  Similarity=0.151  Sum_probs=97.2

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc-------cchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS-------LAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-------~~~~~~~~~d~~i~v~   72 (181)
                      +|||||||++++.+.... ....+............... ...+.+||+||...+..       ....++..+|++++|+
T Consensus         5 ~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~il~v~   83 (163)
T cd00880           5 TNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGP-LGPVVLIDTPGIDEAGGLGREREELARRVLERADLILFVV   83 (163)
T ss_pred             CCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecC-CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEEEEEE
Confidence            699999999999986554 22222222222222222221 45788999999765443       3344788999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHH---HHHHHHHHcCCeEEEEecCCCCCHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNE---EGELYAQENGLSFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~---~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l  149 (181)
                      |+++........ +.....   ..+.|+++++||.|+.........   .........+.+++++||+++.|+++++++|
T Consensus        84 ~~~~~~~~~~~~-~~~~~~---~~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l~~~l  159 (163)
T cd00880          84 DADLRADEEEEK-LLELLR---ERGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDELREAL  159 (163)
T ss_pred             eCCCCCCHHHHH-HHHHHH---hcCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHHHHHHH
Confidence            999877665544 333332   257899999999998653332221   1122233345789999999999999999999


Q ss_pred             HHH
Q 030225          150 AKR  152 (181)
Q Consensus       150 ~~~  152 (181)
                      .+.
T Consensus       160 ~~~  162 (163)
T cd00880         160 IEA  162 (163)
T ss_pred             Hhh
Confidence            875

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

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.85  E-value=2.9e-20  Score=149.34  Aligned_cols=146  Identities=18%  Similarity=0.193  Sum_probs=102.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEE--EEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQ--VLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMD   78 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~--~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~   78 (181)
                      +++|||||+++|....+.....+.++.+....  .+..++....+.||||||+..|..++..++..+|++|+|+|++++.
T Consensus       253 vdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aDiaILVVDA~dGv  332 (742)
T CHL00189        253 VDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGV  332 (742)
T ss_pred             CCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCCEEEEEEECcCCC
Confidence            58999999999998877654444443332222  3333445678999999999999999999999999999999998743


Q ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHH-------HHHcC--CeEEEEecCCCCCHHHHHHHH
Q 030225           79 SFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY-------AQENG--LSFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        79 s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~-------~~~~~--~~~~~~Sa~~~~gi~~~~~~l  149 (181)
                      ...... .+..+.   ..+.|+++++||+|+....   .++....       ...++  ++++++||++|.|+.+++++|
T Consensus       333 ~~QT~E-~I~~~k---~~~iPiIVViNKiDl~~~~---~e~v~~eL~~~~ll~e~~g~~vpvv~VSAktG~GIdeLle~I  405 (742)
T CHL00189        333 KPQTIE-AINYIQ---AANVPIIVAINKIDKANAN---TERIKQQLAKYNLIPEKWGGDTPMIPISASQGTNIDKLLETI  405 (742)
T ss_pred             ChhhHH-HHHHHH---hcCceEEEEEECCCccccC---HHHHHHHHHHhccchHhhCCCceEEEEECCCCCCHHHHHHhh
Confidence            222211 122222   2468999999999985421   1222221       12233  689999999999999999999


Q ss_pred             HHHH
Q 030225          150 AKRL  153 (181)
Q Consensus       150 ~~~~  153 (181)
                      ....
T Consensus       406 ~~l~  409 (742)
T CHL00189        406 LLLA  409 (742)
T ss_pred             hhhh
Confidence            8764

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

Probab=99.85  E-value=8.8e-20  Score=127.65  Aligned_cols=110  Identities=17%  Similarity=0.270  Sum_probs=83.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCC-cEEEEEEECCCh-h
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGA-AAAVVVYDITSM-D   78 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~-d~~i~v~d~~~~-~   78 (181)
                      +|||||||+++|..+.+..++.++ ............+....+.+||+||+..++..+..+++.+ +++|||+|+++. .
T Consensus         9 ~~sGKTsL~~~l~~~~~~~t~~s~-~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~~~   87 (203)
T cd04105           9 SDSGKTALFTKLTTGKYRSTVTSI-EPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSATFQK   87 (203)
T ss_pred             CCCCHHHHHHHHhcCCCCCccCcE-eecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECccchh
Confidence            689999999999998877665433 3333222222224456789999999999988888899998 999999999987 6


Q ss_pred             HHHHHHHHHHHHHHh---CCCCceEEEEEeCCCCcc
Q 030225           79 SFERAKKWVQELQRQ---GNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        79 s~~~~~~~~~~~~~~---~~~~~p~ivi~nK~D~~~  111 (181)
                      ++..+..|+..+...   .....|+++++||+|+..
T Consensus        88 ~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~  123 (203)
T cd04105          88 NLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFT  123 (203)
T ss_pred             HHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcc
Confidence            777777666555332   226899999999999853

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

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.85  E-value=4.7e-20  Score=149.29  Aligned_cols=143  Identities=19%  Similarity=0.182  Sum_probs=101.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +++|||||+++|....+.....+.++.+.....+..++  ..+.||||||+..|..++...+..+|++|+|+|+++...-
T Consensus       299 vd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~~--~~ItfiDTPGhe~F~~m~~rga~~aDiaILVVdAddGv~~  376 (787)
T PRK05306        299 VDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETNG--GKITFLDTPGHEAFTAMRARGAQVTDIVVLVVAADDGVMP  376 (787)
T ss_pred             CCCCHHHHHHHHHhCCccccccCceeeeccEEEEEECC--EEEEEEECCCCccchhHHHhhhhhCCEEEEEEECCCCCCH
Confidence            58999999999998777655444444444444444443  5788999999999999999899999999999999874221


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHH-------HHHHcC--CeEEEEecCCCCCHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL-------YAQENG--LSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~-------~~~~~~--~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      ... ..+....   ..+.|+++++||+|+.+..   .+....       +...++  ++++++||++|+|+.++|++|..
T Consensus       377 qT~-e~i~~a~---~~~vPiIVviNKiDl~~a~---~e~V~~eL~~~~~~~e~~g~~vp~vpvSAktG~GI~eLle~I~~  449 (787)
T PRK05306        377 QTI-EAINHAK---AAGVPIIVAINKIDKPGAN---PDRVKQELSEYGLVPEEWGGDTIFVPVSAKTGEGIDELLEAILL  449 (787)
T ss_pred             hHH-HHHHHHH---hcCCcEEEEEECccccccC---HHHHHHHHHHhcccHHHhCCCceEEEEeCCCCCCchHHHHhhhh
Confidence            111 1122222   2468999999999985421   111111       122333  68999999999999999999976


Q ss_pred             H
Q 030225          152 R  152 (181)
Q Consensus       152 ~  152 (181)
                      .
T Consensus       450 ~  450 (787)
T PRK05306        450 Q  450 (787)
T ss_pred             h
Confidence            4

>cd04163 Era Era subfamily

Probab=99.85  E-value=3.6e-20  Score=125.30  Aligned_cols=147  Identities=19%  Similarity=0.120  Sum_probs=94.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh--------ccchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH--------SLAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~~~~~~d~~i~v~   72 (181)
                      ||||||||++++.+.......... .................+.+||+||.....        ......+..+|++++|+
T Consensus        12 ~g~GKttl~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~   90 (168)
T cd04163          12 PNVGKSTLLNALVGQKISIVSPKP-QTTRNRIRGIYTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVV   90 (168)
T ss_pred             CCCCHHHHHHHHhCCceEeccCCC-CceeceEEEEEEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEEEE
Confidence            699999999999987653322111 111112222233345678899999964322        12344578899999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      |++++.. .....+...+...   +.|+++++||+|+....+...+....+....+ .+++++|++++.|+++++++|.+
T Consensus        91 d~~~~~~-~~~~~~~~~~~~~---~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~l~~~l~~  166 (168)
T cd04163          91 DASEPIG-EGDEFILELLKKS---KTPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPISALKGENVDELLEEIVK  166 (168)
T ss_pred             ECCCccC-chHHHHHHHHHHh---CCCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEEeccCCChHHHHHHHHh
Confidence            9997621 1122233333222   57899999999986433333333444444443 68999999999999999999976


Q ss_pred             H
Q 030225          152 R  152 (181)
Q Consensus       152 ~  152 (181)
                      .
T Consensus       167 ~  167 (168)
T cd04163         167 Y  167 (168)
T ss_pred             h
Confidence            4

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.

>COG1159 Era GTPase [General function prediction only]

Probab=99.84  E-value=2.2e-20  Score=133.23  Aligned_cols=154  Identities=16%  Similarity=0.066  Sum_probs=104.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh--------hhccchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER--------YHSLAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~d~~i~v~   72 (181)
                      ||||||||+|+|++.+....... ..+++.....-+..++.++.++||||-..        +.......+.++|+++||+
T Consensus        15 PNvGKSTLlN~l~G~KisIvS~k-~QTTR~~I~GI~t~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~dvDlilfvv   93 (298)
T COG1159          15 PNVGKSTLLNALVGQKISIVSPK-PQTTRNRIRGIVTTDNAQIIFVDTPGIHKPKHALGELMNKAARSALKDVDLILFVV   93 (298)
T ss_pred             CCCcHHHHHHHHhcCceEeecCC-cchhhhheeEEEEcCCceEEEEeCCCCCCcchHHHHHHHHHHHHHhccCcEEEEEE
Confidence            89999999999999988765433 23333333333444577999999999432        1222345588999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      |++++-.- .....++.+..   .+.|+++++||+|..............+..... ..++++||++|.|++.+.+.+..
T Consensus        94 d~~~~~~~-~d~~il~~lk~---~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n~~~L~~~i~~  169 (298)
T COG1159          94 DADEGWGP-GDEFILEQLKK---TKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKGDNVDTLLEIIKE  169 (298)
T ss_pred             eccccCCc-cHHHHHHHHhh---cCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeeccccCCHHHHHHHHHH
Confidence            99863221 12233344433   357999999999986654422233333333333 46899999999999999999999


Q ss_pred             HHHhhCCC
Q 030225          152 RLAEVNPS  159 (181)
Q Consensus       152 ~~~~~~~~  159 (181)
                      .+.+..+-
T Consensus       170 ~Lpeg~~~  177 (298)
T COG1159         170 YLPEGPWY  177 (298)
T ss_pred             hCCCCCCc
Confidence            88776554

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

Probab=99.84  E-value=4.5e-20  Score=126.87  Aligned_cols=136  Identities=17%  Similarity=0.208  Sum_probs=89.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCCh----------hhhhccchhhcc---CCcE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ----------ERYHSLAPMYYR---GAAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~~~~~~---~~d~   67 (181)
                      +|+|||||+++|++..+...+.++.+.+.....+..++   .+.+||+||.          ..+..+...+++   .+++
T Consensus        27 ~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  103 (179)
T TIGR03598        27 SNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEKRENLKG  103 (179)
T ss_pred             CCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEEeCCCCccccCChhHHHHHHHHHHHHHHhChhhcE
Confidence            69999999999998875555556666555444444443   5889999994          233334444554   3589


Q ss_pred             EEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccc--cCCHHHHHHHHHHcC--CeEEEEecCCCCCHH
Q 030225           68 AVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR--KVKNEEGELYAQENG--LSFLETSAKSAHNVN  143 (181)
Q Consensus        68 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~--~~~~~~~~~~~~~~~--~~~~~~Sa~~~~gi~  143 (181)
                      +++|+|++++-+.... .++..+..   .++|+++++||+|+....  +...++.+..+...+  ..++++||++|+|++
T Consensus       104 ii~vvd~~~~~~~~~~-~~~~~~~~---~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~~~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       104 VVLLMDIRHPLKELDL-EMLEWLRE---RGIPVLIVLTKADKLKKSELNKQLKKIKKALKKDADDPSVQLFSSLKKTGID  179 (179)
T ss_pred             EEEEecCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECcccCCHHHHHHHHHHHHHHHhhccCCCceEEEECCCCCCCC
Confidence            9999999875443333 22233322   368999999999985432  122334444555443  579999999999974

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.

>cd01895 EngA2 EngA2 subfamily

Probab=99.84  E-value=8.7e-20  Score=124.34  Aligned_cols=146  Identities=21%  Similarity=0.154  Sum_probs=93.0

Q ss_pred             CCCchhHHHHHHhhCCCCCc-cccceeeeEEEEEEEECCeEEEEEEEeCCChhhh----------hcc-chhhccCCcEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDF-QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY----------HSL-APMYYRGAAAA   68 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----------~~~-~~~~~~~~d~~   68 (181)
                      ||+|||||+++|++...... ..+..........+..++.  .+.+||+||....          ... ....+..+|++
T Consensus        11 ~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~~d~v   88 (174)
T cd01895          11 PNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDGK--KYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIERADVV   88 (174)
T ss_pred             CCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECCe--eEEEEECCCCccccchhccHHHHHHHHHHHHHhhcCeE
Confidence            69999999999998754321 1122222222233344443  4679999996432          111 12346789999


Q ss_pred             EEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHH-HHHHc----CCeEEEEecCCCCCHH
Q 030225           69 VVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL-YAQEN----GLSFLETSAKSAHNVN  143 (181)
Q Consensus        69 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~-~~~~~----~~~~~~~Sa~~~~gi~  143 (181)
                      ++|+|++++.+.... .++..+..   .+.|+++++||+|+.+......+...+ ..+..    ..+++++||++++|+.
T Consensus        89 i~v~d~~~~~~~~~~-~~~~~~~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  164 (174)
T cd01895          89 LLVIDATEGITEQDL-RIAGLILE---EGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVFISALTGQGVD  164 (174)
T ss_pred             EEEEeCCCCcchhHH-HHHHHHHh---cCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEEEeccCCCCHH
Confidence            999999987665443 23333322   357999999999986543222222222 22222    3689999999999999


Q ss_pred             HHHHHHHHH
Q 030225          144 ELFYEIAKR  152 (181)
Q Consensus       144 ~~~~~l~~~  152 (181)
                      ++++++.+.
T Consensus       165 ~~~~~l~~~  173 (174)
T cd01895         165 KLFDAIDEV  173 (174)
T ss_pred             HHHHHHHHh
Confidence            999998764

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.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.84  E-value=9.7e-20  Score=144.86  Aligned_cols=149  Identities=19%  Similarity=0.203  Sum_probs=104.2

Q ss_pred             CCCchhHHHHHHhhCCCC-------Cccc------cceeeeEEEEEEEE-----CCeEEEEEEEeCCChhhhhccchhhc
Q 030225            1 MGTGKTSLVLRFVKGQFF-------DFQE------STIGAAFFTQVLSL-----NEVTIKFDIWDTAGQERYHSLAPMYY   62 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-------~~~~------~t~~~~~~~~~~~~-----~~~~~~~~i~D~~G~~~~~~~~~~~~   62 (181)
                      .++|||||+.+|+.....       ..+.      ...|.++......+     ++..+.+++|||||+.+|...+..++
T Consensus        16 vd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~dF~~~v~~sl   95 (600)
T PRK05433         16 IDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVDFSYEVSRSL   95 (600)
T ss_pred             CCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcHHHHHHHHHHH
Confidence            479999999999863211       0110      12244443333322     45578999999999999999999999


Q ss_pred             cCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCe---EEEEecCCC
Q 030225           63 RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLS---FLETSAKSA  139 (181)
Q Consensus        63 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~---~~~~Sa~~~  139 (181)
                      +.+|++|+|+|++++........|.... .   .+.|+++++||+|+....  .......+....++.   ++++||++|
T Consensus        96 ~~aD~aILVVDas~gv~~qt~~~~~~~~-~---~~lpiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~~vi~iSAktG  169 (600)
T PRK05433         96 AACEGALLVVDASQGVEAQTLANVYLAL-E---NDLEIIPVLNKIDLPAAD--PERVKQEIEDVIGIDASDAVLVSAKTG  169 (600)
T ss_pred             HHCCEEEEEEECCCCCCHHHHHHHHHHH-H---CCCCEEEEEECCCCCccc--HHHHHHHHHHHhCCCcceEEEEecCCC
Confidence            9999999999999865555444443322 2   367899999999985422  122223344445553   899999999


Q ss_pred             CCHHHHHHHHHHHHHh
Q 030225          140 HNVNELFYEIAKRLAE  155 (181)
Q Consensus       140 ~gi~~~~~~l~~~~~~  155 (181)
                      .|+.+++++|.+.+..
T Consensus       170 ~GI~~Ll~~I~~~lp~  185 (600)
T PRK05433        170 IGIEEVLEAIVERIPP  185 (600)
T ss_pred             CCHHHHHHHHHHhCcc
Confidence            9999999999887653

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.84  E-value=7.1e-20  Score=141.72  Aligned_cols=144  Identities=19%  Similarity=0.156  Sum_probs=96.6

Q ss_pred             CCCchhHHHHHHhhCCCCCc-cccceeeeEEEEEEEECCeEEEEEEEeCCCh--------hhhhccchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDF-QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ--------ERYHSLAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~--------~~~~~~~~~~~~~~d~~i~v   71 (181)
                      ||||||||+|+|.+...... ..+.++.+........++  .++.+|||||.        ..+......+++++|++++|
T Consensus         8 ~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~--~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~vl~v   85 (429)
T TIGR03594         8 PNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGG--REFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVILFV   85 (429)
T ss_pred             CCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECC--eEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCEEEEE
Confidence            79999999999998764221 112222233333333444  46889999995        33444556678999999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHH
Q 030225           72 YDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      +|+.++..... ..+...+..   .++|+++++||+|+.+....    ... ....++ .++++||.+|.|+.++++++.
T Consensus        86 vD~~~~~~~~d-~~i~~~l~~---~~~piilVvNK~D~~~~~~~----~~~-~~~lg~~~~~~vSa~~g~gv~~ll~~i~  156 (429)
T TIGR03594        86 VDGREGLTPED-EEIAKWLRK---SGKPVILVANKIDGKKEDAV----AAE-FYSLGFGEPIPISAEHGRGIGDLLDAIL  156 (429)
T ss_pred             EeCCCCCCHHH-HHHHHHHHH---hCCCEEEEEECccCCccccc----HHH-HHhcCCCCeEEEeCCcCCChHHHHHHHH
Confidence            99987533222 122222322   36899999999998643321    122 334566 799999999999999999998


Q ss_pred             HHHHh
Q 030225          151 KRLAE  155 (181)
Q Consensus       151 ~~~~~  155 (181)
                      +.+.+
T Consensus       157 ~~l~~  161 (429)
T TIGR03594       157 ELLPE  161 (429)
T ss_pred             HhcCc
Confidence            87754

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.

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

Probab=99.84  E-value=4.7e-22  Score=131.73  Aligned_cols=156  Identities=33%  Similarity=0.562  Sum_probs=134.0

Q ss_pred             CCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCe-EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            2 GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEV-TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~-~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      |+|||+++.++....+...|+.|+|.++.......+.. -+++++||+.|++.|..+...|++.+.+.++|||+++...|
T Consensus        35 ~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~~~iVfdvt~s~tf  114 (229)
T KOG4423|consen   35 GVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHGAFIVFDVTRSLTF  114 (229)
T ss_pred             cccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcceEEEEEccccccc
Confidence            79999999999999999999999999988887766554 46889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC----CCCceEEEEEeCCCCcccc-cCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG----NPNLIMFLVANKVDLEEKR-KVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~----~~~~p~ivi~nK~D~~~~~-~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +....|.+.+....    ....|+++.+||+|+.... .....+..++.+++|+ ..+++|++.+.++.|..+.|++.+.
T Consensus       115 e~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtets~Kenkni~Ea~r~lVe~~l  194 (229)
T KOG4423|consen  115 EPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTETSAKENKNIPEAQRELVEKIL  194 (229)
T ss_pred             cHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeeeccccccChhHHHHHHHHHHH
Confidence            99999999886532    2457788899999985422 2223567788888886 6999999999999999999999888


Q ss_pred             hhC
Q 030225          155 EVN  157 (181)
Q Consensus       155 ~~~  157 (181)
                      .+.
T Consensus       195 vnd  197 (229)
T KOG4423|consen  195 VND  197 (229)
T ss_pred             hhc
Confidence            765

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.83  E-value=2e-19  Score=139.43  Aligned_cols=138  Identities=20%  Similarity=0.155  Sum_probs=93.9

Q ss_pred             CCCchhHHHHHHhhCCCCC-ccccceeeeEEEEEEEECCeEEEEEEEeCCChhh--------hhccchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFD-FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER--------YHSLAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~d~~i~v   71 (181)
                      ||||||||+++|.+..... ...+.++.++.......++  ..+.+|||||...        +......++.++|++++|
T Consensus        10 ~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~v   87 (435)
T PRK00093         10 PNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLG--REFILIDTGGIEPDDDGFEKQIREQAELAIEEADVILFV   87 (435)
T ss_pred             CCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECC--cEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEE
Confidence            7999999999999876421 1123333334344444544  6789999999865        222345568899999999


Q ss_pred             EECCChhHHH--HHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCe-EEEEecCCCCCHHHHHHH
Q 030225           72 YDITSMDSFE--RAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLS-FLETSAKSAHNVNELFYE  148 (181)
Q Consensus        72 ~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~gi~~~~~~  148 (181)
                      +|++++.+..  .+..|+..      .+.|+++++||+|+.+.    ......+ ...++. ++++||++|.|+.+++++
T Consensus        88 vd~~~~~~~~~~~~~~~l~~------~~~piilv~NK~D~~~~----~~~~~~~-~~lg~~~~~~iSa~~g~gv~~l~~~  156 (435)
T PRK00093         88 VDGRAGLTPADEEIAKILRK------SNKPVILVVNKVDGPDE----EADAYEF-YSLGLGEPYPISAEHGRGIGDLLDA  156 (435)
T ss_pred             EECCCCCCHHHHHHHHHHHH------cCCcEEEEEECccCccc----hhhHHHH-HhcCCCCCEEEEeeCCCCHHHHHHH
Confidence            9998753322  23333332      26899999999996431    1222222 345664 899999999999999999


Q ss_pred             HHH
Q 030225          149 IAK  151 (181)
Q Consensus       149 l~~  151 (181)
                      +..
T Consensus       157 I~~  159 (435)
T PRK00093        157 ILE  159 (435)
T ss_pred             HHh
Confidence            987

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.83  E-value=3.2e-19  Score=144.98  Aligned_cols=145  Identities=14%  Similarity=0.165  Sum_probs=107.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhcc----------chhh--ccCCcEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSL----------APMY--YRGAAAA   68 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~----------~~~~--~~~~d~~   68 (181)
                      ||||||||+|+|.+....  ..+..|+++......+.....++.+||+||..++...          ...+  ...+|++
T Consensus        12 pNvGKSTLfN~Ltg~~~~--vgn~pGvTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~v   89 (772)
T PRK09554         12 PNSGKTTLFNQLTGARQR--VGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLL   89 (772)
T ss_pred             CCCCHHHHHHHHhCCCCc--cCCCCCceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHHHHhccCCCEE
Confidence            799999999999986542  2344566666666566666778899999998765432          1223  2479999


Q ss_pred             EEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHH
Q 030225           69 VVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYE  148 (181)
Q Consensus        69 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~  148 (181)
                      ++|+|+++.+...   .+..++.+   .+.|+++++||+|+.+.+.. .....++.+..+++++++||++++|++++++.
T Consensus        90 I~VvDat~ler~l---~l~~ql~e---~giPvIvVlNK~Dl~~~~~i-~id~~~L~~~LG~pVvpiSA~~g~GIdeL~~~  162 (772)
T PRK09554         90 INVVDASNLERNL---YLTLQLLE---LGIPCIVALNMLDIAEKQNI-RIDIDALSARLGCPVIPLVSTRGRGIEALKLA  162 (772)
T ss_pred             EEEecCCcchhhH---HHHHHHHH---cCCCEEEEEEchhhhhccCc-HHHHHHHHHHhCCCEEEEEeecCCCHHHHHHH
Confidence            9999999865432   24444443   36899999999998654444 34556777888999999999999999999999


Q ss_pred             HHHHHH
Q 030225          149 IAKRLA  154 (181)
Q Consensus       149 l~~~~~  154 (181)
                      +.+...
T Consensus       163 I~~~~~  168 (772)
T PRK09554        163 IDRHQA  168 (772)
T ss_pred             HHHhhh
Confidence            987653

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

Probab=99.83  E-value=1.6e-20  Score=124.80  Aligned_cols=154  Identities=32%  Similarity=0.548  Sum_probs=136.0

Q ss_pred             CCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHH
Q 030225            2 GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFE   81 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   81 (181)
                      |.||||++++++.+.+..++.+|+|..+....+.-+.+.++|..||+.|++.+..+...++-.+...|++||++..-.+.
T Consensus        20 g~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAiimFdVtsr~t~~   99 (216)
T KOG0096|consen   20 GTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAIIMFDVTSRFTYK   99 (216)
T ss_pred             cccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeEEEeeeeehhhhh
Confidence            78999999999999999999999999998888877777899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           82 RAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        82 ~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      ++.+|...+.+.+ .++|+++.|||.|... +. ...+...+.+..++.|+++||+.+.|++..|-||..++.....
T Consensus       100 n~~rwhrd~~rv~-~NiPiv~cGNKvDi~~-r~-~k~k~v~~~rkknl~y~~iSaksn~NfekPFl~LarKl~G~p~  173 (216)
T KOG0096|consen  100 NVPRWHRDLVRVR-ENIPIVLCGNKVDIKA-RK-VKAKPVSFHRKKNLQYYEISAKSNYNFERPFLWLARKLTGDPS  173 (216)
T ss_pred             cchHHHHHHHHHh-cCCCeeeeccceeccc-cc-cccccceeeecccceeEEeecccccccccchHHHhhhhcCCCC
Confidence            9999999988876 5699999999999744 22 2334455677788999999999999999999999998877644

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

Probab=99.83  E-value=2.4e-19  Score=141.81  Aligned_cols=147  Identities=18%  Similarity=0.152  Sum_probs=96.2

Q ss_pred             CCCchhHHHHHHhhCCCCCcccc----ceeeeEEEEEEE------------ECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQES----TIGAAFFTQVLS------------LNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~----t~~~~~~~~~~~------------~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +|+|||||+++|.+..+......    ++|..+......            ++.....+.+|||||++.|..++..+++.
T Consensus        13 ~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~~l~~~~~~~   92 (590)
T TIGR00491        13 VDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFTNLRKRGGAL   92 (590)
T ss_pred             CCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHHHHHHHHHhh
Confidence            68999999999998876543322    233322211110            00111238899999999999999999999


Q ss_pred             CcEEEEEEECCC---hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC------------CHHH----------
Q 030225           65 AAAAVVVYDITS---MDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV------------KNEE----------  119 (181)
Q Consensus        65 ~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~------------~~~~----------  119 (181)
                      +|++++|+|+++   +.+++.+.    .+..   .+.|+++++||+|+...+..            ....          
T Consensus        93 aD~~IlVvD~~~g~~~qt~e~i~----~l~~---~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~~~v~~~~~~~~~  165 (590)
T TIGR00491        93 ADLAILIVDINEGFKPQTQEALN----ILRM---YKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQEIQVQQNLDTKVY  165 (590)
T ss_pred             CCEEEEEEECCcCCCHhHHHHHH----HHHH---cCCCEEEEEECCCccchhhhccCchHHHHHHhhhHHHHHHHHHHHH
Confidence            999999999987   34443332    2222   36799999999998532110            0000          


Q ss_pred             --HHHHHH------------Hc--CCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225          120 --GELYAQ------------EN--GLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       120 --~~~~~~------------~~--~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                        ...+..            ++  ..+++++||++|+|+++++++|.....
T Consensus       166 ~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~~  216 (590)
T TIGR00491       166 NLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLAQ  216 (590)
T ss_pred             HHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHHH
Confidence              001110            11  258999999999999999999876544

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.

>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=99.82  E-value=7e-20  Score=126.87  Aligned_cols=150  Identities=23%  Similarity=0.196  Sum_probs=98.5

Q ss_pred             CCCchhHHHHHHhhCCCCCcc------------------ccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhc
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ------------------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY   62 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~------------------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   62 (181)
                      .++|||||+++|+........                  ...++.......+........+.++|+||+..|.......+
T Consensus        12 ~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~~f~~~~~~~~   91 (188)
T PF00009_consen   12 VDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHEDFIKEMIRGL   91 (188)
T ss_dssp             TTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSHHHHHHHHHHH
T ss_pred             CCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeecccccccceeeccccee
Confidence            479999999999864422110                  01122222222222235567889999999999988888889


Q ss_pred             cCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc-CCHHHHH-HHHHHc------CCeEEEE
Q 030225           63 RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK-VKNEEGE-LYAQEN------GLSFLET  134 (181)
Q Consensus        63 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~-~~~~~~~-~~~~~~------~~~~~~~  134 (181)
                      ..+|++|+|+|+.++-.. .....+..+...   +.|+++++||+|+...+. ...++.. .+.+..      .++++++
T Consensus        92 ~~~D~ailvVda~~g~~~-~~~~~l~~~~~~---~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi~~  167 (188)
T PF00009_consen   92 RQADIAILVVDANDGIQP-QTEEHLKILREL---GIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGENGEEIVPVIPI  167 (188)
T ss_dssp             TTSSEEEEEEETTTBSTH-HHHHHHHHHHHT---T-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTSTTTSTEEEEEE
T ss_pred             cccccceeeeeccccccc-cccccccccccc---ccceEEeeeeccchhhhHHHHHHHHHHHhccccccCccccceEEEE
Confidence            999999999999865332 233344444333   678999999999863211 1111122 333333      2579999


Q ss_pred             ecCCCCCHHHHHHHHHHHHH
Q 030225          135 SAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       135 Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      ||.+|.|+.++++.|.+.+.
T Consensus       168 Sa~~g~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  168 SALTGDGIDELLEALVELLP  187 (188)
T ss_dssp             BTTTTBTHHHHHHHHHHHS-
T ss_pred             ecCCCCCHHHHHHHHHHhCc
Confidence            99999999999999987653

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 ....

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.82  E-value=2.8e-19  Score=138.59  Aligned_cols=149  Identities=19%  Similarity=0.178  Sum_probs=95.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh----------hhcc-chhhccCCcEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER----------YHSL-APMYYRGAAAAV   69 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~~-~~~~~~~~d~~i   69 (181)
                      ||+|||||+++|++...... .+..|+++......+......+.+|||||...          +... ...+++.+|+++
T Consensus       182 ~n~GKStlin~ll~~~~~~~-~~~~gtt~~~~~~~~~~~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~i  260 (435)
T PRK00093        182 PNVGKSSLINALLGEERVIV-SDIAGTTRDSIDTPFERDGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIERADVVL  260 (435)
T ss_pred             CCCCHHHHHHHHhCCCceee-cCCCCceEEEEEEEEEECCeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHHCCEEE
Confidence            79999999999997653221 12233444443333333345678999999532          1111 123678899999


Q ss_pred             EEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHH-HHHH----cCCeEEEEecCCCCCHHH
Q 030225           70 VVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL-YAQE----NGLSFLETSAKSAHNVNE  144 (181)
Q Consensus        70 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~-~~~~----~~~~~~~~Sa~~~~gi~~  144 (181)
                      +|+|++++.+.... .++..+..   .++|+++++||+|+.+...  ..+... ....    ..++++++||+++.|+.+
T Consensus       261 lViD~~~~~~~~~~-~i~~~~~~---~~~~~ivv~NK~Dl~~~~~--~~~~~~~~~~~l~~~~~~~i~~~SA~~~~gv~~  334 (435)
T PRK00093        261 LVIDATEGITEQDL-RIAGLALE---AGRALVIVVNKWDLVDEKT--MEEFKKELRRRLPFLDYAPIVFISALTGQGVDK  334 (435)
T ss_pred             EEEeCCCCCCHHHH-HHHHHHHH---cCCcEEEEEECccCCCHHH--HHHHHHHHHHhcccccCCCEEEEeCCCCCCHHH
Confidence            99999987665543 23333333   3579999999999863221  111111 1111    247899999999999999


Q ss_pred             HHHHHHHHHHhh
Q 030225          145 LFYEIAKRLAEV  156 (181)
Q Consensus       145 ~~~~l~~~~~~~  156 (181)
                      +++.+.+.....
T Consensus       335 l~~~i~~~~~~~  346 (435)
T PRK00093        335 LLEAIDEAYENA  346 (435)
T ss_pred             HHHHHHHHHHHH
Confidence            999988766543

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.82  E-value=2.4e-19  Score=145.83  Aligned_cols=144  Identities=25%  Similarity=0.210  Sum_probs=96.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh--------hhccchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER--------YHSLAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~d~~i~v~   72 (181)
                      ||||||||+|+|++..... ..++.|+++.............+.+|||||...        +......++..+|++++|+
T Consensus       284 ~nvGKSSL~n~l~~~~~~i-v~~~pGvT~d~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~iL~Vv  362 (712)
T PRK09518        284 PNVGKSTLVNRILGRREAV-VEDTPGVTRDRVSYDAEWAGTDFKLVDTGGWEADVEGIDSAIASQAQIAVSLADAVVFVV  362 (712)
T ss_pred             CCCCHHHHHHHHhCCCcee-ecCCCCeeEEEEEEEEEECCEEEEEEeCCCcCCCCccHHHHHHHHHHHHHHhCCEEEEEE
Confidence            7999999999999876422 223445555444444433345788999999652        2333455688999999999


Q ss_pred             ECCChhHHHHH-HHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHH
Q 030225           73 DITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        73 d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      |+++.-  ... ..|...+..   .++|+++++||+|+....   ......+.  .+. ..+++||++|.|+.+++++|+
T Consensus       363 Da~~~~--~~~d~~i~~~Lr~---~~~pvIlV~NK~D~~~~~---~~~~~~~~--lg~~~~~~iSA~~g~GI~eLl~~i~  432 (712)
T PRK09518        363 DGQVGL--TSTDERIVRMLRR---AGKPVVLAVNKIDDQASE---YDAAEFWK--LGLGEPYPISAMHGRGVGDLLDEAL  432 (712)
T ss_pred             ECCCCC--CHHHHHHHHHHHh---cCCCEEEEEECcccccch---hhHHHHHH--cCCCCeEEEECCCCCCchHHHHHHH
Confidence            998632  222 234444433   478999999999985421   11122222  232 357899999999999999999


Q ss_pred             HHHHh
Q 030225          151 KRLAE  155 (181)
Q Consensus       151 ~~~~~  155 (181)
                      +.+..
T Consensus       433 ~~l~~  437 (712)
T PRK09518        433 DSLKV  437 (712)
T ss_pred             Hhccc
Confidence            98755

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.81  E-value=1.8e-18  Score=140.76  Aligned_cols=150  Identities=19%  Similarity=0.153  Sum_probs=99.9

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChh----------hhhcc-chhhccCCcEE
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE----------RYHSL-APMYYRGAAAA   68 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~~-~~~~~~~~d~~   68 (181)
                      ||||||||+|+|++.... ....+.++.+.....+.+++..  +.+|||||..          .+..+ ...+++.+|++
T Consensus       459 ~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~~--~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~advv  536 (712)
T PRK09518        459 PNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGED--WLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSELA  536 (712)
T ss_pred             CCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECCCE--EEEEECCCcccCcccchhHHHHHHHHHHHHhhcCCEE
Confidence            799999999999988642 1222333344444445556554  5699999953          12222 13447899999


Q ss_pred             EEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHH-Hc----CCeEEEEecCCCCCHH
Q 030225           69 VVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQ-EN----GLSFLETSAKSAHNVN  143 (181)
Q Consensus        69 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~-~~----~~~~~~~Sa~~~~gi~  143 (181)
                      ++|+|++++.+..... ++..+..   .++|+++++||+|+.+...  .+....... ..    ..+++++||++|.|++
T Consensus       537 ilViDat~~~s~~~~~-i~~~~~~---~~~piIiV~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~ii~iSAktg~gv~  610 (712)
T PRK09518        537 LFLFDASQPISEQDLK-VMSMAVD---AGRALVLVFNKWDLMDEFR--RQRLERLWKTEFDRVTWARRVNLSAKTGWHTN  610 (712)
T ss_pred             EEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEEchhcCChhH--HHHHHHHHHHhccCCCCCCEEEEECCCCCCHH
Confidence            9999999887766654 3344433   3689999999999864221  111221111 11    2467999999999999


Q ss_pred             HHHHHHHHHHHhhCC
Q 030225          144 ELFYEIAKRLAEVNP  158 (181)
Q Consensus       144 ~~~~~l~~~~~~~~~  158 (181)
                      ++++.+.+.+.+...
T Consensus       611 ~L~~~i~~~~~~~~~  625 (712)
T PRK09518        611 RLAPAMQEALESWDQ  625 (712)
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999998876433

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

Probab=99.81  E-value=3.7e-19  Score=137.36  Aligned_cols=144  Identities=16%  Similarity=0.102  Sum_probs=94.0

Q ss_pred             CCCchhHHHHHHhhC--CCCCcc---------------------------ccceeeeEEEEEEEECCeEEEEEEEeCCCh
Q 030225            1 MGTGKTSLVLRFVKG--QFFDFQ---------------------------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ   51 (181)
Q Consensus         1 ~~~GKttLl~~l~~~--~~~~~~---------------------------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   51 (181)
                      +++|||||+.+|+..  ......                           ...-|.+.......+....+.+.+||+||+
T Consensus        16 vd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~~~~~i~iiDtpGh   95 (426)
T TIGR00483        16 VDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFETDKYEVTIVDCPGH   95 (426)
T ss_pred             cCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEccCCeEEEEEECCCH
Confidence            489999999999862  221100                           001133344444455666678999999999


Q ss_pred             hhhhccchhhccCCcEEEEEEECCChhHHHH--HHHHHHHHHHhCCCCceEEEEEeCCCCccccc----CCHHHHHHHHH
Q 030225           52 ERYHSLAPMYYRGAAAAVVVYDITSMDSFER--AKKWVQELQRQGNPNLIMFLVANKVDLEEKRK----VKNEEGELYAQ  125 (181)
Q Consensus        52 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~----~~~~~~~~~~~  125 (181)
                      +.|.......+..+|++++|+|++++++...  ...++......  ...|+++++||+|+.+..+    ....+...+++
T Consensus        96 ~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~--~~~~iIVviNK~Dl~~~~~~~~~~~~~ei~~~~~  173 (426)
T TIGR00483        96 RDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTL--GINQLIVAINKMDSVNYDEEEFEAIKKEVSNLIK  173 (426)
T ss_pred             HHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHc--CCCeEEEEEEChhccCccHHHHHHHHHHHHHHHH
Confidence            9887666667789999999999998753211  11222222222  2457999999999864211    12344555666


Q ss_pred             HcC-----CeEEEEecCCCCCHHHHH
Q 030225          126 ENG-----LSFLETSAKSAHNVNELF  146 (181)
Q Consensus       126 ~~~-----~~~~~~Sa~~~~gi~~~~  146 (181)
                      ..+     ++++++||++|.|+.+.+
T Consensus       174 ~~g~~~~~~~~i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       174 KVGYNPDTVPFIPISAWNGDNVIKKS  199 (426)
T ss_pred             HcCCCcccceEEEeeccccccccccc
Confidence            655     579999999999998644

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.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.81  E-value=1.5e-18  Score=117.66  Aligned_cols=143  Identities=20%  Similarity=0.251  Sum_probs=94.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh----------hhhccchhhcc---CCcE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE----------RYHSLAPMYYR---GAAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~~~~~~~~---~~d~   67 (181)
                      +|+|||||++++.++.+.....++.+.+.....+..++   .+.+||+||..          .+......++.   +.++
T Consensus         8 ~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (170)
T cd01876           8 SNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLENRENLKG   84 (170)
T ss_pred             CCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC---eEEEecCCCccccccCHHHHHHHHHHHHHHHHhChhhhE
Confidence            69999999999997666665666666655554444444   78899999942          23333444444   4578


Q ss_pred             EEEEEECCChhH--HHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc--CCHHHHHHHHH--HcCCeEEEEecCCCCC
Q 030225           68 AVVVYDITSMDS--FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK--VKNEEGELYAQ--ENGLSFLETSAKSAHN  141 (181)
Q Consensus        68 ~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~--~~~~~~~~~~~--~~~~~~~~~Sa~~~~g  141 (181)
                      +++++|..+...  ...+..|+...      +.|+++++||+|+.....  .........++  ....+++++||+++.|
T Consensus        85 ~~~v~d~~~~~~~~~~~~~~~l~~~------~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Sa~~~~~  158 (170)
T cd01876          85 VVLLIDSRHGPTEIDLEMLDWLEEL------GIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIILFSSLKGQG  158 (170)
T ss_pred             EEEEEEcCcCCCHhHHHHHHHHHHc------CCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEEEecCCCCC
Confidence            899999876532  22233333322      478999999999843221  11122222232  2346889999999999


Q ss_pred             HHHHHHHHHHH
Q 030225          142 VNELFYEIAKR  152 (181)
Q Consensus       142 i~~~~~~l~~~  152 (181)
                      +++++++|.+.
T Consensus       159 ~~~l~~~l~~~  169 (170)
T cd01876         159 IDELRALIEKW  169 (170)
T ss_pred             HHHHHHHHHHh
Confidence            99999999864

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.

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.80  E-value=4.1e-19  Score=137.12  Aligned_cols=144  Identities=19%  Similarity=0.117  Sum_probs=93.9

Q ss_pred             CCCchhHHHHHHhhCCCCCcc-----------------------------ccceeeeEEEEEEEECCeEEEEEEEeCCCh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ-----------------------------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ   51 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~-----------------------------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   51 (181)
                      +++|||||+++|+........                             ....|+++......++...+++.+|||||+
T Consensus        15 ~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~~~~i~liDtpG~   94 (425)
T PRK12317         15 VDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETDKYYFTIVDCPGH   94 (425)
T ss_pred             CCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecCCeEEEEEECCCc
Confidence            689999999999843221100                             012344555555566666788999999999


Q ss_pred             hhhhccchhhccCCcEEEEEEECCChhHHHH-HHHHHHHHHHhCCCCceEEEEEeCCCCccccc----CCHHHHHHHHHH
Q 030225           52 ERYHSLAPMYYRGAAAAVVVYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEEKRK----VKNEEGELYAQE  126 (181)
Q Consensus        52 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~----~~~~~~~~~~~~  126 (181)
                      +.|.......+..+|++++|+|+++...+.. ...++..+...  ...|+++++||+|+.+..+    ...++...++..
T Consensus        95 ~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~--~~~~iivviNK~Dl~~~~~~~~~~~~~~i~~~l~~  172 (425)
T PRK12317         95 RDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTL--GINQLIVAINKMDAVNYDEKRYEEVKEEVSKLLKM  172 (425)
T ss_pred             ccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHc--CCCeEEEEEEccccccccHHHHHHHHHHHHHHHHh
Confidence            8876655556789999999999987312222 22233333222  2357899999999864211    122344455555


Q ss_pred             cC-----CeEEEEecCCCCCHHHHH
Q 030225          127 NG-----LSFLETSAKSAHNVNELF  146 (181)
Q Consensus       127 ~~-----~~~~~~Sa~~~~gi~~~~  146 (181)
                      .+     ++++++||++|+|+.+..
T Consensus       173 ~g~~~~~~~ii~iSA~~g~gi~~~~  197 (425)
T PRK12317        173 VGYKPDDIPFIPVSAFEGDNVVKKS  197 (425)
T ss_pred             hCCCcCcceEEEeecccCCCccccc
Confidence            54     479999999999998754

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.80  E-value=2.7e-18  Score=136.93  Aligned_cols=151  Identities=14%  Similarity=0.139  Sum_probs=98.9

Q ss_pred             CCCchhHHHHHHhhC---CCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCCh
Q 030225            1 MGTGKTSLVLRFVKG---QFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSM   77 (181)
Q Consensus         1 ~~~GKttLl~~l~~~---~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   77 (181)
                      +++|||||+++|.+.   .+.++....++.+.....+...+ ...+.+||+||++.|.......+.++|++++|+|++++
T Consensus         9 vdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~-g~~i~~IDtPGhe~fi~~m~~g~~~~D~~lLVVda~eg   87 (614)
T PRK10512          9 VDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPD-GRVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDG   87 (614)
T ss_pred             CCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCC-CcEEEEEECCCHHHHHHHHHHHhhcCCEEEEEEECCCC
Confidence            579999999999863   33334434444443333332222 23578999999999877777778999999999998863


Q ss_pred             hHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc--CCHHHHHHHHHHcC---CeEEEEecCCCCCHHHHHHHHHHH
Q 030225           78 DSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK--VKNEEGELYAQENG---LSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        78 ~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~--~~~~~~~~~~~~~~---~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      - .......+..+...  ...++++++||+|+.+...  ...++...+....+   .+++++||++|+|++++++.|.+.
T Consensus        88 ~-~~qT~ehl~il~~l--gi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~L~~~L~~~  164 (614)
T PRK10512         88 V-MAQTREHLAILQLT--GNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEGRGIDALREHLLQL  164 (614)
T ss_pred             C-cHHHHHHHHHHHHc--CCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCHHHHHHHHHh
Confidence            1 12222333333222  2233578999999864221  11233444544444   689999999999999999999876


Q ss_pred             HHh
Q 030225          153 LAE  155 (181)
Q Consensus       153 ~~~  155 (181)
                      ...
T Consensus       165 ~~~  167 (614)
T PRK10512        165 PER  167 (614)
T ss_pred             hcc
Confidence            544

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.80  E-value=8.1e-19  Score=123.34  Aligned_cols=142  Identities=21%  Similarity=0.192  Sum_probs=88.6

Q ss_pred             CCCchhHHHHHHhhCCCCCcc-c----------------------------cceeeeEEEEEEEECCeEEEEEEEeCCCh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ-E----------------------------STIGAAFFTQVLSLNEVTIKFDIWDTAGQ   51 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~-~----------------------------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   51 (181)
                      +|+|||||+++|+........ .                            ..-|+++......+.....++.+|||||+
T Consensus         8 ~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~liDTpG~   87 (208)
T cd04166           8 VDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPKRKFIIADTPGH   87 (208)
T ss_pred             CCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCCceEEEEECCcH
Confidence            699999999999764322110 0                            00123333333344445567889999999


Q ss_pred             hhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc----CCHHHHHHHHHHc
Q 030225           52 ERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK----VKNEEGELYAQEN  127 (181)
Q Consensus        52 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~----~~~~~~~~~~~~~  127 (181)
                      ..|.......+..+|++++|+|++++.. .........+...  ..+++++++||+|+.....    ....+...+....
T Consensus        88 ~~~~~~~~~~~~~ad~~llVvD~~~~~~-~~~~~~~~~~~~~--~~~~iIvviNK~D~~~~~~~~~~~i~~~~~~~~~~~  164 (208)
T cd04166          88 EQYTRNMVTGASTADLAILLVDARKGVL-EQTRRHSYILSLL--GIRHVVVAVNKMDLVDYSEEVFEEIVADYLAFAAKL  164 (208)
T ss_pred             HHHHHHHHHhhhhCCEEEEEEECCCCcc-HhHHHHHHHHHHc--CCCcEEEEEEchhcccCCHHHHHHHHHHHHHHHHHc
Confidence            8877666667899999999999986532 1122222222222  2345778899999854221    1122334445555


Q ss_pred             C---CeEEEEecCCCCCHHHH
Q 030225          128 G---LSFLETSAKSAHNVNEL  145 (181)
Q Consensus       128 ~---~~~~~~Sa~~~~gi~~~  145 (181)
                      +   .+++.+||+++.|+.+.
T Consensus       165 ~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         165 GIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             CCCCceEEEEeCCCCCCCccC
Confidence            5   35899999999998753

CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.79  E-value=1.2e-18  Score=138.34  Aligned_cols=151  Identities=18%  Similarity=0.212  Sum_probs=107.8

Q ss_pred             CCCchhHHHHHHhhC--CCCCcc------------ccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            1 MGTGKTSLVLRFVKG--QFFDFQ------------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         1 ~~~GKttLl~~l~~~--~~~~~~------------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      .++|||||+++|+..  .+....            ....|.++......+.+..+++.+|||||+..|...+..+++.+|
T Consensus        10 vd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF~~ev~~~l~~aD   89 (594)
T TIGR01394        10 VDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFGGEVERVLGMVD   89 (594)
T ss_pred             CCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHHHHHHHHHHHhCC
Confidence            479999999999863  221111            012355565666666666789999999999999988899999999


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc-CCHHHHHHHHH-------HcCCeEEEEecCC
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK-VKNEEGELYAQ-------ENGLSFLETSAKS  138 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~-~~~~~~~~~~~-------~~~~~~~~~Sa~~  138 (181)
                      ++++|+|+++. .......|+..+...   +.|.++++||+|+.+.+. ....+...+..       ...++++++||++
T Consensus        90 ~alLVVDa~~G-~~~qT~~~l~~a~~~---~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~pvl~~SA~~  165 (594)
T TIGR01394        90 GVLLLVDASEG-PMPQTRFVLKKALEL---GLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDFPIVYASGRA  165 (594)
T ss_pred             EEEEEEeCCCC-CcHHHHHHHHHHHHC---CCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccCcEEechhhc
Confidence            99999999863 344556676666553   578899999999854322 11223333332       2357899999999


Q ss_pred             CC----------CHHHHHHHHHHHHHh
Q 030225          139 AH----------NVNELFYEIAKRLAE  155 (181)
Q Consensus       139 ~~----------gi~~~~~~l~~~~~~  155 (181)
                      |.          |+..+|+.+++.+..
T Consensus       166 g~~~~~~~~~~~gi~~Lld~Iv~~lP~  192 (594)
T TIGR01394       166 GWASLDLDDPSDNMAPLFDAIVRHVPA  192 (594)
T ss_pred             CcccccCcccccCHHHHHHHHHHhCCC
Confidence            95          799999998877653

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.

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.79  E-value=6e-18  Score=134.26  Aligned_cols=146  Identities=23%  Similarity=0.192  Sum_probs=94.0

Q ss_pred             CCCchhHHHHHHhhCCCCCcccc----ceeeeEEEEEEE--ECCeE-----E-----EEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQES----TIGAAFFTQVLS--LNEVT-----I-----KFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~----t~~~~~~~~~~~--~~~~~-----~-----~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +|+|||||+++|.+.........    ++|.++......  ..+..     .     .+.+|||||++.|..++...+..
T Consensus        15 ~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~f~~~~~~~~~~   94 (586)
T PRK04004         15 VDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEAFTNLRKRGGAL   94 (586)
T ss_pred             CCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHHHHHHHHHhHhh
Confidence            68999999999987655433322    333322221110  00111     1     26899999999999988888899


Q ss_pred             CcEEEEEEECCC---hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC----CH--------H-----------
Q 030225           65 AAAAVVVYDITS---MDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV----KN--------E-----------  118 (181)
Q Consensus        65 ~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~----~~--------~-----------  118 (181)
                      +|++++|+|+++   +.+++.+.    .+..   .+.|+++++||+|+...+..    ..        .           
T Consensus        95 aD~~IlVvDa~~g~~~qt~e~i~----~~~~---~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~~~~~~v~~~f~~~l~  167 (586)
T PRK04004         95 ADIAILVVDINEGFQPQTIEAIN----ILKR---RKTPFVVAANKIDRIPGWKSTEDAPFLESIEKQSQRVQQELEEKLY  167 (586)
T ss_pred             CCEEEEEEECCCCCCHhHHHHHH----HHHH---cCCCEEEEEECcCCchhhhhhcCchHHHHHhhhhHHHHHHHHHHHH
Confidence            999999999997   44544432    2222   46889999999998521110    00        0           


Q ss_pred             HHHHHHHHc---------------CCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225          119 EGELYAQEN---------------GLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       119 ~~~~~~~~~---------------~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +...+....               .++++++||++|+|+.++++.+...+
T Consensus       168 ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~  217 (586)
T PRK04004        168 ELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLA  217 (586)
T ss_pred             HHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHH
Confidence            011111211               25789999999999999999887544

>PRK10218 GTP-binding protein; Provisional

Probab=99.79  E-value=5e-18  Score=134.77  Aligned_cols=150  Identities=17%  Similarity=0.177  Sum_probs=106.6

Q ss_pred             CCCchhHHHHHHhh--CCCCCcc------------ccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            1 MGTGKTSLVLRFVK--GQFFDFQ------------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         1 ~~~GKttLl~~l~~--~~~~~~~------------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      +++|||||+++|+.  +.+....            ..+.|.++......+.+..+++.+|||||+..|...+..+++.+|
T Consensus        14 ~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~~v~~~l~~aD   93 (607)
T PRK10218         14 VDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGGEVERVMSMVD   93 (607)
T ss_pred             CCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHHHHHHHHHhCC
Confidence            58999999999997  3332211            134567777777777778889999999999999999999999999


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc-CCHHHHHHHHH-------HcCCeEEEEecCC
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK-VKNEEGELYAQ-------ENGLSFLETSAKS  138 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~-~~~~~~~~~~~-------~~~~~~~~~Sa~~  138 (181)
                      ++|+|+|+++... ...+.++..+..   .+.|.++++||+|+.+.+. ...++...+..       ...++++.+||++
T Consensus        94 g~ILVVDa~~G~~-~qt~~~l~~a~~---~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~~~PVi~~SA~~  169 (607)
T PRK10218         94 SVLLVVDAFDGPM-PQTRFVTKKAFA---YGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQLDFPIVYASALN  169 (607)
T ss_pred             EEEEEEecccCcc-HHHHHHHHHHHH---cCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccccccCCCEEEeEhhc
Confidence            9999999987432 223344444433   3678899999999864322 11122333221       1347899999999


Q ss_pred             CC----------CHHHHHHHHHHHHH
Q 030225          139 AH----------NVNELFYEIAKRLA  154 (181)
Q Consensus       139 ~~----------gi~~~~~~l~~~~~  154 (181)
                      |.          |+..+++.+++.+.
T Consensus       170 G~~~~~~~~~~~~i~~Lld~Ii~~iP  195 (607)
T PRK10218        170 GIAGLDHEDMAEDMTPLYQAIVDHVP  195 (607)
T ss_pred             CcccCCccccccchHHHHHHHHHhCC
Confidence            98          57888887776654

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.78  E-value=4.7e-18  Score=121.37  Aligned_cols=106  Identities=19%  Similarity=0.189  Sum_probs=75.9

Q ss_pred             CCCchhHHHHHHhhCCCCCcc----------------ccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ----------------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~----------------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +|+|||||+++|+........                ....+.++......+.....++.+|||||+..|...+..+++.
T Consensus         8 ~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~~~~~~~l~~   87 (237)
T cd04168           8 VDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFIAEVERSLSV   87 (237)
T ss_pred             CCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchHHHHHHHHHH
Confidence            589999999999864221100                0112333444455555667789999999999988888889999


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      +|++++|+|+++.... ....++..+..   .++|.++++||+|+.
T Consensus        88 aD~~IlVvd~~~g~~~-~~~~~~~~~~~---~~~P~iivvNK~D~~  129 (237)
T cd04168          88 LDGAILVISAVEGVQA-QTRILWRLLRK---LNIPTIIFVNKIDRA  129 (237)
T ss_pred             hCeEEEEEeCCCCCCH-HHHHHHHHHHH---cCCCEEEEEECcccc
Confidence            9999999999976432 33455555543   367999999999974

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.78  E-value=1.2e-18  Score=130.88  Aligned_cols=144  Identities=18%  Similarity=0.142  Sum_probs=99.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh---------ccchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH---------SLAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~~~~~~~d~~i~v   71 (181)
                      ||||||||.|||.+.+..... .+.|+++.-...........|.++||+|-+...         ......+..||++|||
T Consensus        12 PNVGKSTLFNRL~g~r~AIV~-D~pGvTRDr~y~~~~~~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~eADvilfv   90 (444)
T COG1160          12 PNVGKSTLFNRLTGRRIAIVS-DTPGVTRDRIYGDAEWLGREFILIDTGGLDDGDEDELQELIREQALIAIEEADVILFV   90 (444)
T ss_pred             CCCcHHHHHHHHhCCeeeEee-cCCCCccCCccceeEEcCceEEEEECCCCCcCCchHHHHHHHHHHHHHHHhCCEEEEE
Confidence            899999999999998765432 455666655555555555679999999965322         2234567899999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHH
Q 030225           72 YDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      +|...+-+-.  ...+..++..  .++|+++++||+|-..    .+....+|. .+|+ .++.+||..|.|+.++++.++
T Consensus        91 VD~~~Git~~--D~~ia~~Lr~--~~kpviLvvNK~D~~~----~e~~~~efy-slG~g~~~~ISA~Hg~Gi~dLld~v~  161 (444)
T COG1160          91 VDGREGITPA--DEEIAKILRR--SKKPVILVVNKIDNLK----AEELAYEFY-SLGFGEPVPISAEHGRGIGDLLDAVL  161 (444)
T ss_pred             EeCCCCCCHH--HHHHHHHHHh--cCCCEEEEEEcccCch----hhhhHHHHH-hcCCCCceEeehhhccCHHHHHHHHH
Confidence            9988632221  1222222222  4689999999999642    112222232 3565 589999999999999999999


Q ss_pred             HHHH
Q 030225          151 KRLA  154 (181)
Q Consensus       151 ~~~~  154 (181)
                      ..+.
T Consensus       162 ~~l~  165 (444)
T COG1160         162 ELLP  165 (444)
T ss_pred             hhcC
Confidence            9873

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.78  E-value=3.5e-18  Score=131.01  Aligned_cols=113  Identities=19%  Similarity=0.176  Sum_probs=80.5

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC--CH
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV--KN  117 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~--~~  117 (181)
                      ...+.+||+||++.|...+......+|++++|+|++++.........+..+...  ..+|+++++||+|+.+....  ..
T Consensus        79 ~~~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~--gi~~iIVvvNK~Dl~~~~~~~~~~  156 (406)
T TIGR03680        79 LRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEII--GIKNIVIVQNKIDLVSKEKALENY  156 (406)
T ss_pred             ccEEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHc--CCCeEEEEEEccccCCHHHHHHHH
Confidence            467899999999999888888888899999999998643122233344433332  23578999999998642211  12


Q ss_pred             HHHHHHHHHc---CCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225          118 EEGELYAQEN---GLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       118 ~~~~~~~~~~---~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      ++...+....   +++++++||++|+|+++++++|...+.
T Consensus       157 ~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l~  196 (406)
T TIGR03680       157 EEIKEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFIP  196 (406)
T ss_pred             HHHHhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhCC
Confidence            3333444332   578999999999999999999987654

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

>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=99.77  E-value=4.4e-17  Score=116.20  Aligned_cols=144  Identities=21%  Similarity=0.157  Sum_probs=92.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh-------ccchhhccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH-------SLAPMYYRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~~~~~~~d~~i~v~d   73 (181)
                      ||||||||+++|.+........+..+.+.....+.+++  .++++||+||.....       .....+++++|++++|+|
T Consensus         9 ~~~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~~~--~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad~il~V~D   86 (233)
T cd01896           9 PSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEYKG--AKIQLLDLPGIIEGAADGKGRGRQVIAVARTADLILMVLD   86 (233)
T ss_pred             CCCCHHHHHHHHHCCCccccCCCCccccceEEEEEECC--eEEEEEECCCcccccccchhHHHHHHHhhccCCEEEEEec
Confidence            79999999999998653221112222222233333443  578899999974322       122356899999999999


Q ss_pred             CCChhH-HHHHHHHHHHH-----------------------------------------HHhC-----------------
Q 030225           74 ITSMDS-FERAKKWVQEL-----------------------------------------QRQG-----------------   94 (181)
Q Consensus        74 ~~~~~s-~~~~~~~~~~~-----------------------------------------~~~~-----------------   94 (181)
                      +++++. .+.+...+..+                                         .++.                 
T Consensus        87 ~t~~~~~~~~~~~~l~~~gi~l~~~~~~v~~~~~~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v~~~~~~~~~~~  166 (233)
T cd01896          87 ATKPEGHREILERELEGVGIRLNKRPPNITIKKKKKGGINITSTVPLTKLDEKTIKAILREYKIHNADVLIREDITVDDL  166 (233)
T ss_pred             CCcchhHHHHHHHHHHHcCceecCCCCeEEEEEEecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeEEEEEccCCCHHHH
Confidence            987652 33333322210                                         0000                 


Q ss_pred             -------CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           95 -------NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        95 -------~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                             ....|+++++||+|+..     .++...+++  ...++++||+++.|++++++.+.+.+
T Consensus       167 ~~~~~~~~~y~p~iiV~NK~Dl~~-----~~~~~~~~~--~~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         167 IDVIEGNRVYIPCLYVYNKIDLIS-----IEELDLLAR--QPNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             HHHHhCCceEeeEEEEEECccCCC-----HHHHHHHhc--CCCEEEEcCCCCCCHHHHHHHHHHHh
Confidence                   12368999999999843     344444443  35689999999999999999998754

GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.77  E-value=2.4e-18  Score=121.81  Aligned_cols=141  Identities=14%  Similarity=0.092  Sum_probs=89.2

Q ss_pred             CCCchhHHHHHHhhCCCCCc--------------------------cc---cceeeeEEEEEEEECCeEEEEEEEeCCCh
Q 030225            1 MGTGKTSLVLRFVKGQFFDF--------------------------QE---STIGAAFFTQVLSLNEVTIKFDIWDTAGQ   51 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~--------------------------~~---~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   51 (181)
                      +++|||||+.+|+.......                          +.   ..-|+++......+.....++.+||+||+
T Consensus         8 ~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~~~i~liDtpG~   87 (219)
T cd01883           8 VDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEKYRFTILDAPGH   87 (219)
T ss_pred             CCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCCeEEEEEECCCh
Confidence            58999999999974221100                          00   01234444455555556678999999999


Q ss_pred             hhhhccchhhccCCcEEEEEEECCChh------HHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccc--cc----CCHHH
Q 030225           52 ERYHSLAPMYYRGAAAAVVVYDITSMD------SFERAKKWVQELQRQGNPNLIMFLVANKVDLEEK--RK----VKNEE  119 (181)
Q Consensus        52 ~~~~~~~~~~~~~~d~~i~v~d~~~~~------s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~--~~----~~~~~  119 (181)
                      ..|...+...+..+|++|+|+|++++.      ........+......  ..+|+++++||+|+...  .+    ....+
T Consensus        88 ~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~iiivvNK~Dl~~~~~~~~~~~~i~~~  165 (219)
T cd01883          88 RDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTL--GVKQLIVAVNKMDDVTVNWSEERYDEIKKE  165 (219)
T ss_pred             HHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHc--CCCeEEEEEEccccccccccHHHHHHHHHH
Confidence            888777777788899999999999742      111222222333222  34689999999998631  11    11122


Q ss_pred             HHHHHHHcC-----CeEEEEecCCCCCHH
Q 030225          120 GELYAQENG-----LSFLETSAKSAHNVN  143 (181)
Q Consensus       120 ~~~~~~~~~-----~~~~~~Sa~~~~gi~  143 (181)
                      ...+....+     ++++++||++|+|+.
T Consensus       166 l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         166 LSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             HHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            222334433     579999999999987

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

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.77  E-value=2.5e-17  Score=109.53  Aligned_cols=143  Identities=20%  Similarity=0.275  Sum_probs=105.1

Q ss_pred             CCchhHHHHHHhhCCCCCc--------cc----cceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEE
Q 030225            2 GTGKTSLVLRFVKGQFFDF--------QE----STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAV   69 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~--------~~----~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   69 (181)
                      ++||||++++++.......        ..    -|+..++....+  . ....+.++|+|||++|..+|..+++++.++|
T Consensus        20 ~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~--~-~~~~v~LfgtPGq~RF~fm~~~l~~ga~gai   96 (187)
T COG2229          20 GAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIEL--D-EDTGVHLFGTPGQERFKFMWEILSRGAVGAI   96 (187)
T ss_pred             ccchhhHHHHhhccccceeeccccccccccccceeEeecccceEE--c-CcceEEEecCCCcHHHHHHHHHHhCCcceEE
Confidence            7999999999997664211        11    123333333222  2 2246789999999999999999999999999


Q ss_pred             EEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHc--CCeEEEEecCCCCCHHHHHH
Q 030225           70 VVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQEN--GLSFLETSAKSAHNVNELFY  147 (181)
Q Consensus        70 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~gi~~~~~  147 (181)
                      +++|.+++..+ .....++-+....  ..|++|++||.|+.+.+.  .++...+....  .+++++.+|.+++|..+.++
T Consensus        97 vlVDss~~~~~-~a~~ii~f~~~~~--~ip~vVa~NK~DL~~a~p--pe~i~e~l~~~~~~~~vi~~~a~e~~~~~~~L~  171 (187)
T COG2229          97 VLVDSSRPITF-HAEEIIDFLTSRN--PIPVVVAINKQDLFDALP--PEKIREALKLELLSVPVIEIDATEGEGARDQLD  171 (187)
T ss_pred             EEEecCCCcch-HHHHHHHHHhhcc--CCCEEEEeeccccCCCCC--HHHHHHHHHhccCCCceeeeecccchhHHHHHH
Confidence            99999998887 5555555554442  289999999999966444  34444444333  78999999999999999999


Q ss_pred             HHHHH
Q 030225          148 EIAKR  152 (181)
Q Consensus       148 ~l~~~  152 (181)
                      .+...
T Consensus       172 ~ll~~  176 (187)
T COG2229         172 VLLLK  176 (187)
T ss_pred             HHHhh
Confidence            88765

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.76  E-value=1.1e-17  Score=126.13  Aligned_cols=145  Identities=21%  Similarity=0.159  Sum_probs=100.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhcc--------chhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSL--------APMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~~~d~~i~v~   72 (181)
                      ||||||||+|.|++..-.... .-.|+++...+..++-..+.+.+.||+|-.+-...        ....+++||++++|+
T Consensus       226 PNvGKSSLLNaL~~~d~AIVT-dI~GTTRDviee~i~i~G~pv~l~DTAGiRet~d~VE~iGIeRs~~~i~~ADlvL~v~  304 (454)
T COG0486         226 PNVGKSSLLNALLGRDRAIVT-DIAGTTRDVIEEDINLNGIPVRLVDTAGIRETDDVVERIGIERAKKAIEEADLVLFVL  304 (454)
T ss_pred             CCCcHHHHHHHHhcCCceEec-CCCCCccceEEEEEEECCEEEEEEecCCcccCccHHHHHHHHHHHHHHHhCCEEEEEE
Confidence            899999999999987654322 44455566666555555566779999996532221        234578999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      |.+.+.+-... ..+.    ....++|+++|.||.|+.........   .  ...+.+++.+|+++++|++.+.+.|.+.
T Consensus       305 D~~~~~~~~d~-~~~~----~~~~~~~~i~v~NK~DL~~~~~~~~~---~--~~~~~~~i~iSa~t~~Gl~~L~~~i~~~  374 (454)
T COG0486         305 DASQPLDKEDL-ALIE----LLPKKKPIIVVLNKADLVSKIELESE---K--LANGDAIISISAKTGEGLDALREAIKQL  374 (454)
T ss_pred             eCCCCCchhhH-HHHH----hcccCCCEEEEEechhcccccccchh---h--ccCCCceEEEEecCccCHHHHHHHHHHH
Confidence            99985221111 1111    22367899999999999764442111   1  1124579999999999999999999998


Q ss_pred             HHhh
Q 030225          153 LAEV  156 (181)
Q Consensus       153 ~~~~  156 (181)
                      +...
T Consensus       375 ~~~~  378 (454)
T COG0486         375 FGKG  378 (454)
T ss_pred             Hhhc
Confidence            8776

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.76  E-value=1.4e-17  Score=118.99  Aligned_cols=165  Identities=14%  Similarity=0.120  Sum_probs=110.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh------------hhccchhhccCCcEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER------------YHSLAPMYYRGAAAA   68 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~------------~~~~~~~~~~~~d~~   68 (181)
                      ||+|||||.|.+++.+..+....+.++ +......+..+..++.|+||||...            +.......+..||.+
T Consensus        81 PNvGKStLtN~mig~kv~~vS~K~~TT-r~~ilgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q~AD~v  159 (379)
T KOG1423|consen   81 PNVGKSTLTNQMIGQKVSAVSRKVHTT-RHRILGIITSGETQLVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQNADCV  159 (379)
T ss_pred             CCcchhhhhhHhhCCccccccccccce-eeeeeEEEecCceEEEEecCCcccccchhhhHHHHHHhhhCHHHHHhhCCEE
Confidence            899999999999999988766555443 3344444556667999999999421            111223456789999


Q ss_pred             EEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccc-------------cCC--HHH-HHHHHHHc-----
Q 030225           69 VVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR-------------KVK--NEE-GELYAQEN-----  127 (181)
Q Consensus        69 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~-------------~~~--~~~-~~~~~~~~-----  127 (181)
                      ++++|+++....-. ...+..+..+  ...|.+++.||.|....+             ++.  .-+ .+.+...-     
T Consensus       160 vVv~Das~tr~~l~-p~vl~~l~~y--s~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~kl~v~~~f~~~p~~~~~  236 (379)
T KOG1423|consen  160 VVVVDASATRTPLH-PRVLHMLEEY--SKIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKLKLEVQEKFTDVPSDEKW  236 (379)
T ss_pred             EEEEeccCCcCccC-hHHHHHHHHH--hcCCceeeccchhcchhhhHHhhhHHhccccccchhhhhHHHHhccCCccccc
Confidence            99999997332211 2334445444  478999999999964321             111  111 11111111     


Q ss_pred             ----CC----eEEEEecCCCCCHHHHHHHHHHHHHhhCCCCccccccccc
Q 030225          128 ----GL----SFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTE  169 (181)
Q Consensus       128 ----~~----~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~~~~~~~~~~~  169 (181)
                          |+    .+|.+||++|+||+++.++|..++....+..+..+.....
T Consensus       237 ~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~~gpW~y~a~i~T~~s  286 (379)
T KOG1423|consen  237 RTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAPPGPWKYPADIVTEES  286 (379)
T ss_pred             ccccCcccceeEEEEecccccCHHHHHHHHHhcCCCCCCCCCcccccccC
Confidence                12    3899999999999999999999998888877766655443

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

Probab=99.75  E-value=1.6e-17  Score=127.32  Aligned_cols=112  Identities=17%  Similarity=0.173  Sum_probs=75.9

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC--CHH
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV--KNE  118 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~--~~~  118 (181)
                      .++.+||+||+..|..........+|++++|+|++++.........+..+...  ...|+++++||+|+.+....  ..+
T Consensus        85 ~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~~--~i~~iiVVlNK~Dl~~~~~~~~~~~  162 (411)
T PRK04000         85 RRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDII--GIKNIVIVQNKIDLVSKERALENYE  162 (411)
T ss_pred             cEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHHc--CCCcEEEEEEeeccccchhHHHHHH
Confidence            57899999999888766555566789999999999643111112222223222  23468999999998653221  112


Q ss_pred             HHHHHHHHc---CCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225          119 EGELYAQEN---GLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       119 ~~~~~~~~~---~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +...+++..   +.+++++||++++|+++++++|...+.
T Consensus       163 ~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l~  201 (411)
T PRK04000        163 QIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEIP  201 (411)
T ss_pred             HHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhCC
Confidence            333444322   478999999999999999999988664

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.75  E-value=4.6e-17  Score=122.41  Aligned_cols=153  Identities=20%  Similarity=0.143  Sum_probs=105.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh----------hhcc-chhhccCCcEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER----------YHSL-APMYYRGAAAAV   69 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~~-~~~~~~~~d~~i   69 (181)
                      ||+|||||+|+|+++.-... .+..|+++......+....-++.++||.|...          |... ....+..+|+++
T Consensus       187 PNvGKSsLiN~ilgeeR~Iv-~~~aGTTRD~I~~~~e~~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI~~a~vvl  265 (444)
T COG1160         187 PNVGKSSLINAILGEERVIV-SDIAGTTRDSIDIEFERDGRKYVLIDTAGIRRKGKITESVEKYSVARTLKAIERADVVL  265 (444)
T ss_pred             CCCCchHHHHHhccCceEEe-cCCCCccccceeeeEEECCeEEEEEECCCCCcccccccceEEEeehhhHhHHhhcCEEE
Confidence            89999999999998765443 25667777777776665555677999999532          2111 234467899999


Q ss_pred             EEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHH-c----CCeEEEEecCCCCCHHH
Q 030225           70 VVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE-N----GLSFLETSAKSAHNVNE  144 (181)
Q Consensus        70 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~-~----~~~~~~~Sa~~~~gi~~  144 (181)
                      +|+|++.+-+-+. .+....+.+   .+.++++++||+|+.+..+...++.....+. +    ..+++.+||+++.|+.+
T Consensus       266 lviDa~~~~~~qD-~~ia~~i~~---~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~iSA~~~~~i~~  341 (444)
T COG1160         266 LVIDATEGISEQD-LRIAGLIEE---AGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVFISALTGQGLDK  341 (444)
T ss_pred             EEEECCCCchHHH-HHHHHHHHH---cCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEEEEecCCCChHH
Confidence            9999997654332 233333333   4678999999999876543444443322222 1    25889999999999999


Q ss_pred             HHHHHHHHHHhhCC
Q 030225          145 LFYEIAKRLAEVNP  158 (181)
Q Consensus       145 ~~~~l~~~~~~~~~  158 (181)
                      +|+.+......-..
T Consensus       342 l~~~i~~~~~~~~~  355 (444)
T COG1160         342 LFEAIKEIYECATR  355 (444)
T ss_pred             HHHHHHHHHHHhcc
Confidence            99998876655433

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.74  E-value=9.3e-17  Score=111.47  Aligned_cols=138  Identities=16%  Similarity=0.125  Sum_probs=90.3

Q ss_pred             CCCchhHHHHHHhhCCCC------Ccc--------ccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            1 MGTGKTSLVLRFVKGQFF------DFQ--------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~------~~~--------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      +++|||||+++|+.....      ..+        ...-|.++......+.....++.++||||+..|.......+..+|
T Consensus        11 ~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~~~~~~~~~~~~~D   90 (195)
T cd01884          11 VDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYIKNMITGAAQMD   90 (195)
T ss_pred             CCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHHHHHHHHHHHhhhCC
Confidence            589999999999863100      000        012244444555556666678899999999888777777888999


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCce-EEEEEeCCCCcccccC---CHHHHHHHHHHcC-----CeEEEEecC
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRKV---KNEEGELYAQENG-----LSFLETSAK  137 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivi~nK~D~~~~~~~---~~~~~~~~~~~~~-----~~~~~~Sa~  137 (181)
                      ++++|+|+..+-. ......+..+...   +.| +++++||+|+....+.   ...+...+....+     ++++.+||+
T Consensus        91 ~~ilVvda~~g~~-~~~~~~~~~~~~~---~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~~~v~iipiSa~  166 (195)
T cd01884          91 GAILVVSATDGPM-PQTREHLLLARQV---GVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFDGDNTPIVRGSAL  166 (195)
T ss_pred             EEEEEEECCCCCc-HHHHHHHHHHHHc---CCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcccccCCeEEEeeCc
Confidence            9999999986422 2223344444333   455 7788999998532221   2233444554443     689999999


Q ss_pred             CCCCH
Q 030225          138 SAHNV  142 (181)
Q Consensus       138 ~~~gi  142 (181)
                      +|.++
T Consensus       167 ~g~n~  171 (195)
T cd01884         167 KALEG  171 (195)
T ss_pred             cccCC
Confidence            99875

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.

>cd04167 Snu114p Snu114p subfamily

Probab=99.74  E-value=4.4e-17  Score=114.97  Aligned_cols=106  Identities=23%  Similarity=0.251  Sum_probs=73.2

Q ss_pred             CCCchhHHHHHHhhCCCCCcc-----------------ccceeeeEEEEEEEE-----CCeEEEEEEEeCCChhhhhccc
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ-----------------ESTIGAAFFTQVLSL-----NEVTIKFDIWDTAGQERYHSLA   58 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~-----------------~~t~~~~~~~~~~~~-----~~~~~~~~i~D~~G~~~~~~~~   58 (181)
                      +|+|||||+++|+........                 ....|.++......+     ++..+.+.+||+||+..|....
T Consensus         9 ~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~~~f~~~~   88 (213)
T cd04167           9 LHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGHVNFMDEV   88 (213)
T ss_pred             CCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCCcchHHHH
Confidence            589999999999975543221                 011122222222221     3557899999999999888888


Q ss_pred             hhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           59 PMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        59 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      ..++..+|++++|+|+++..+... ..++.....   .+.|+++++||+|+.
T Consensus        89 ~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~---~~~p~iiviNK~D~~  136 (213)
T cd04167          89 AAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL---EGLPIVLVINKIDRL  136 (213)
T ss_pred             HHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECcccC
Confidence            888999999999999987655432 334444332   348999999999974

Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.73  E-value=6.6e-17  Score=116.04  Aligned_cols=142  Identities=19%  Similarity=0.243  Sum_probs=96.3

Q ss_pred             CCCchhHHHHHHhhCCCCC-c-----cccceeeeEEEEEEEECCeEEEEEEEeCCChhh----hhccchhh---ccCCcE
Q 030225            1 MGTGKTSLVLRFVKGQFFD-F-----QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER----YHSLAPMY---YRGAAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~-~-----~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~~---~~~~d~   67 (181)
                      ||+||||||++|...+... .     ..|.+|      .+.+++ ...+.+-|+||--+    .+.+-..|   ++.++.
T Consensus       205 PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG------~v~ydd-f~q~tVADiPGiI~GAh~nkGlG~~FLrHiER~~~  277 (366)
T KOG1489|consen  205 PNAGKSTLLNALSRAKPKVAHYAFTTLRPHIG------TVNYDD-FSQITVADIPGIIEGAHMNKGLGYKFLRHIERCKG  277 (366)
T ss_pred             CCCcHHHHHHHhhccCCcccccceeeeccccc------eeeccc-cceeEeccCccccccccccCcccHHHHHHHHhhce
Confidence            8999999999999865432 1     223333      222222 22488999999532    22233333   567999


Q ss_pred             EEEEEECCCh---hHHHHHHHHHHHHHHhC--CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC-CeEEEEecCCCCC
Q 030225           68 AVVVYDITSM---DSFERAKKWVQELQRQG--NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG-LSFLETSAKSAHN  141 (181)
Q Consensus        68 ~i~v~d~~~~---~s~~~~~~~~~~~~~~~--~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~g  141 (181)
                      ++||+|++.+   ..|+.++.+..++..+.  ....|.++|+||+|+.+....   ....+++... ..++++||++++|
T Consensus       278 l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~eae~~---~l~~L~~~lq~~~V~pvsA~~~eg  354 (366)
T KOG1489|consen  278 LLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEAEKN---LLSSLAKRLQNPHVVPVSAKSGEG  354 (366)
T ss_pred             EEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhHHHH---HHHHHHHHcCCCcEEEeeeccccc
Confidence            9999999988   77888777766665533  367899999999998432221   1234444333 3599999999999


Q ss_pred             HHHHHHHHHHH
Q 030225          142 VNELFYEIAKR  152 (181)
Q Consensus       142 i~~~~~~l~~~  152 (181)
                      ++++++.|.+.
T Consensus       355 l~~ll~~lr~~  365 (366)
T KOG1489|consen  355 LEELLNGLREL  365 (366)
T ss_pred             hHHHHHHHhhc
Confidence            99999988653

>COG2262 HflX GTPases [General function prediction only]

Probab=99.73  E-value=2.9e-16  Score=116.59  Aligned_cols=150  Identities=20%  Similarity=0.184  Sum_probs=106.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCCh---------hhhhccchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ---------ERYHSLAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~---------~~~~~~~~~~~~~~d~~i~v   71 (181)
                      .|+|||||+|+|.+........-..+.+...+.+.+.+ ...+.+-||.|-         +.|++... -...+|+++.|
T Consensus       201 TNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~-g~~vlLtDTVGFI~~LP~~LV~AFksTLE-E~~~aDlllhV  278 (411)
T COG2262         201 TNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGD-GRKVLLTDTVGFIRDLPHPLVEAFKSTLE-EVKEADLLLHV  278 (411)
T ss_pred             ccccHHHHHHHHhccCeeccccccccccCceeEEEeCC-CceEEEecCccCcccCChHHHHHHHHHHH-HhhcCCEEEEE
Confidence            48999999999997665543333333333445555554 346789999993         23443332 24679999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           72 YDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +|+++++..+.+.-....+.+.....+|++++.||+|+.....    .......... ..+.+||++++|++.+++.|.+
T Consensus       279 VDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~----~~~~~~~~~~-~~v~iSA~~~~gl~~L~~~i~~  353 (411)
T COG2262         279 VDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEE----ILAELERGSP-NPVFISAKTGEGLDLLRERIIE  353 (411)
T ss_pred             eecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchh----hhhhhhhcCC-CeEEEEeccCcCHHHHHHHHHH
Confidence            9999998777777777777776667899999999999754332    1111111112 5899999999999999999999


Q ss_pred             HHHhhC
Q 030225          152 RLAEVN  157 (181)
Q Consensus       152 ~~~~~~  157 (181)
                      .+....
T Consensus       354 ~l~~~~  359 (411)
T COG2262         354 LLSGLR  359 (411)
T ss_pred             Hhhhcc
Confidence            888653

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.72  E-value=2e-16  Score=107.42  Aligned_cols=147  Identities=18%  Similarity=0.201  Sum_probs=102.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCC----------hhhhhccchhhccC---CcE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAG----------QERYHSLAPMYYRG---AAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~~~~~~---~d~   67 (181)
                      ||||||||||+|++.+.......|+|.+.....+.+++.   +.++|.||          .+.+..+...|++.   -.+
T Consensus        33 SNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~---~~lVDlPGYGyAkv~k~~~e~w~~~i~~YL~~R~~L~~  109 (200)
T COG0218          33 SNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE---LRLVDLPGYGYAKVPKEVKEKWKKLIEEYLEKRANLKG  109 (200)
T ss_pred             CcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc---EEEEeCCCcccccCCHHHHHHHHHHHHHHHhhchhheE
Confidence            799999999999998866667789999998888888875   67999999          34455555666653   468


Q ss_pred             EEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHc----CCe--EEEEecCCCCC
Q 030225           68 AVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQEN----GLS--FLETSAKSAHN  141 (181)
Q Consensus        68 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~----~~~--~~~~Sa~~~~g  141 (181)
                      +++++|+..+-.-.+. ..++-+ ..  .+.|+++++||+|.....+... .....+...    ...  ++..|+..+.|
T Consensus       110 vvlliD~r~~~~~~D~-em~~~l-~~--~~i~~~vv~tK~DKi~~~~~~k-~l~~v~~~l~~~~~~~~~~~~~ss~~k~G  184 (200)
T COG0218         110 VVLLIDARHPPKDLDR-EMIEFL-LE--LGIPVIVVLTKADKLKKSERNK-QLNKVAEELKKPPPDDQWVVLFSSLKKKG  184 (200)
T ss_pred             EEEEEECCCCCcHHHH-HHHHHH-HH--cCCCeEEEEEccccCChhHHHH-HHHHHHHHhcCCCCccceEEEEecccccC
Confidence            8888998754332221 122222 22  4789999999999865433221 112222222    222  78889999999


Q ss_pred             HHHHHHHHHHHHHh
Q 030225          142 VNELFYEIAKRLAE  155 (181)
Q Consensus       142 i~~~~~~l~~~~~~  155 (181)
                      ++++.+.|.+.+..
T Consensus       185 i~~l~~~i~~~~~~  198 (200)
T COG0218         185 IDELKAKILEWLKE  198 (200)
T ss_pred             HHHHHHHHHHHhhc
Confidence            99999999887654

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

Probab=99.72  E-value=1.9e-17  Score=108.07  Aligned_cols=144  Identities=19%  Similarity=0.262  Sum_probs=107.8

Q ss_pred             CCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHH
Q 030225            2 GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFE   81 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   81 (181)
                      |+|||||+++|.+++... +.||.-.+  +.++.+  .+.+|..+|.+||..-+..|..|+..+|++++.+|+.|.+.|.
T Consensus        30 NAGKTTLLHMLKdDrl~q-hvPTlHPT--SE~l~I--g~m~ftt~DLGGH~qArr~wkdyf~~v~~iv~lvda~d~er~~  104 (193)
T KOG0077|consen   30 NAGKTTLLHMLKDDRLGQ-HVPTLHPT--SEELSI--GGMTFTTFDLGGHLQARRVWKDYFPQVDAIVYLVDAYDQERFA  104 (193)
T ss_pred             CCchhhHHHHHccccccc-cCCCcCCC--hHHhee--cCceEEEEccccHHHHHHHHHHHHhhhceeEeeeehhhHHHhH
Confidence            799999999999877654 33554322  222333  4567889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHH---HHHHc---C-----------CeEEEEecCCCCCHH
Q 030225           82 RAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGEL---YAQEN---G-----------LSFLETSAKSAHNVN  143 (181)
Q Consensus        82 ~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~---~~~~~---~-----------~~~~~~Sa~~~~gi~  143 (181)
                      +.+..++.+.... ....|+++.+||+|.....  .+++...   ..+..   +           +.++.||...+.|.-
T Consensus       105 es~~eld~ll~~e~la~vp~lilgnKId~p~a~--se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~evfmcsi~~~~gy~  182 (193)
T KOG0077|consen  105 ESKKELDALLSDESLATVPFLILGNKIDIPYAA--SEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEVFMCSIVRKMGYG  182 (193)
T ss_pred             HHHHHHHHHHhHHHHhcCcceeecccccCCCcc--cHHHHHHHHHHHHHhcccccccccCCCCCeEEEEEEEEEccCccc
Confidence            9998888876643 3689999999999986533  2232221   11111   1           246899999999999


Q ss_pred             HHHHHHHHH
Q 030225          144 ELFYEIAKR  152 (181)
Q Consensus       144 ~~~~~l~~~  152 (181)
                      +.|.|+.+.
T Consensus       183 e~fkwl~qy  191 (193)
T KOG0077|consen  183 EGFKWLSQY  191 (193)
T ss_pred             eeeeehhhh
Confidence            999888654

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

Probab=99.72  E-value=2.4e-16  Score=123.57  Aligned_cols=149  Identities=18%  Similarity=0.108  Sum_probs=105.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhh-------hccchhhc-cCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY-------HSLAPMYY-RGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~~-~~~d~~i~v~   72 (181)
                      ||||||||.|+|.+.+...-.-|.++++...-.+...+.  ++.+.|.||--..       ....+..+ .++|++|-|+
T Consensus        12 PNvGKTtlFN~LTG~~q~VgNwpGvTVEkkeg~~~~~~~--~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~~D~ivnVv   89 (653)
T COG0370          12 PNVGKTTLFNALTGANQKVGNWPGVTVEKKEGKLKYKGH--EIEIVDLPGTYSLTAYSEDEKVARDFLLEGKPDLIVNVV   89 (653)
T ss_pred             CCccHHHHHHHHhccCceecCCCCeeEEEEEEEEEecCc--eEEEEeCCCcCCCCCCCchHHHHHHHHhcCCCCEEEEEc
Confidence            899999999999997765544466665555555555554  5779999994221       11223333 3579999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      |+++.+.--.+.-.   +.+   -+.|++++.|+.|..+.+-+ ..+..++.+..|+|++.+||++|+|++++++.+.+.
T Consensus        90 DAtnLeRnLyltlQ---LlE---~g~p~ilaLNm~D~A~~~Gi-~ID~~~L~~~LGvPVv~tvA~~g~G~~~l~~~i~~~  162 (653)
T COG0370          90 DATNLERNLYLTLQ---LLE---LGIPMILALNMIDEAKKRGI-RIDIEKLSKLLGVPVVPTVAKRGEGLEELKRAIIEL  162 (653)
T ss_pred             ccchHHHHHHHHHH---HHH---cCCCeEEEeccHhhHHhcCC-cccHHHHHHHhCCCEEEEEeecCCCHHHHHHHHHHh
Confidence            99987654333222   222   36789999999998664433 334566677789999999999999999999999886


Q ss_pred             HHhhCC
Q 030225          153 LAEVNP  158 (181)
Q Consensus       153 ~~~~~~  158 (181)
                      ...+..
T Consensus       163 ~~~~~~  168 (653)
T COG0370         163 AESKTT  168 (653)
T ss_pred             cccccc
Confidence            666553

>PRK12736 elongation factor Tu; Reviewed

Probab=99.70  E-value=4.5e-16  Score=118.99  Aligned_cols=150  Identities=17%  Similarity=0.156  Sum_probs=96.9

Q ss_pred             CCCchhHHHHHHhhCCCCC--------------ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            1 MGTGKTSLVLRFVKGQFFD--------------FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~--------------~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      +++|||||+++|++.....              .....-|.+.......+.....++.+||+||+.+|.......+..+|
T Consensus        21 vd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~~~~~~d  100 (394)
T PRK12736         21 VDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGHADYVKNMITGAAQMD  100 (394)
T ss_pred             CCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCHHHHHHHHHHHHhhCC
Confidence            5799999999998631100              00012244444555556555667899999999988776666678899


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCce-EEEEEeCCCCcccccCC---HHHHHHHHHHcC-----CeEEEEecC
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRKVK---NEEGELYAQENG-----LSFLETSAK  137 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivi~nK~D~~~~~~~~---~~~~~~~~~~~~-----~~~~~~Sa~  137 (181)
                      ++++|+|++++.. .....++..+...   +.| +++++||+|+.+..+..   .++...+++..+     ++++.+||+
T Consensus       101 ~~llVvd~~~g~~-~~t~~~~~~~~~~---g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~~ii~vSa~  176 (394)
T PRK12736        101 GAILVVAATDGPM-PQTREHILLARQV---GVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYDFPGDDIPVIRGSAL  176 (394)
T ss_pred             EEEEEEECCCCCc-hhHHHHHHHHHHc---CCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHhCCCcCCccEEEeecc
Confidence            9999999986422 2223344444333   456 67889999986432221   224445555554     579999999


Q ss_pred             CCC--------CHHHHHHHHHHHHH
Q 030225          138 SAH--------NVNELFYEIAKRLA  154 (181)
Q Consensus       138 ~~~--------gi~~~~~~l~~~~~  154 (181)
                      +|.        ++.++++.|.+.+.
T Consensus       177 ~g~~~~~~~~~~i~~Ll~~l~~~lp  201 (394)
T PRK12736        177 KALEGDPKWEDAIMELMDAVDEYIP  201 (394)
T ss_pred             ccccCCCcchhhHHHHHHHHHHhCC
Confidence            983        56777777766543

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.70  E-value=1.6e-15  Score=115.92  Aligned_cols=147  Identities=18%  Similarity=0.177  Sum_probs=108.2

Q ss_pred             CchhHHHHHHhhCCCCCccccceeeeEEEEEEEECC-eEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHH
Q 030225            3 TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNE-VTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFE   81 (181)
Q Consensus         3 ~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~   81 (181)
                      -||||||..+-..+.....-..++..+....+..+. ..-.+.|+|||||+.|..|+..-.+-+|++|+|+|+.|.---+
T Consensus        16 HGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIaILVVa~dDGv~pQ   95 (509)
T COG0532          16 HGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIAILVVAADDGVMPQ   95 (509)
T ss_pred             CCccchhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEEEEEEEccCCcchh
Confidence            499999999998888776666677677777777652 2346789999999999999988889999999999998732111


Q ss_pred             HHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC---------CeEEEEecCCCCCHHHHHHHHHHH
Q 030225           82 RAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG---------LSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        82 ~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      . .   ..+......+.|+++++||+|..+   ........-..++|         ..++++||++|+|+.+|++.+.-.
T Consensus        96 T-i---EAI~hak~a~vP~iVAiNKiDk~~---~np~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~Gi~eLL~~ill~  168 (509)
T COG0532          96 T-I---EAINHAKAAGVPIVVAINKIDKPE---ANPDKVKQELQEYGLVPEEWGGDVIFVPVSAKTGEGIDELLELILLL  168 (509)
T ss_pred             H-H---HHHHHHHHCCCCEEEEEecccCCC---CCHHHHHHHHHHcCCCHhhcCCceEEEEeeccCCCCHHHHHHHHHHH
Confidence            1 1   122222336899999999999863   22333333333444         368999999999999999998876


Q ss_pred             HHhh
Q 030225          153 LAEV  156 (181)
Q Consensus       153 ~~~~  156 (181)
                      ....
T Consensus       169 aev~  172 (509)
T COG0532         169 AEVL  172 (509)
T ss_pred             HHHH
Confidence            5554

>cd04169 RF3 RF3 subfamily

Probab=99.70  E-value=7.6e-16  Score=111.78  Aligned_cols=107  Identities=18%  Similarity=0.168  Sum_probs=74.5

Q ss_pred             CCCchhHHHHHHhhCCCCCcccc--------------------ceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQES--------------------TIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM   60 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~--------------------t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   60 (181)
                      +|+|||||+++|+..........                    .-+.++......+++..+++.+|||||+..|......
T Consensus        11 ~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~df~~~~~~   90 (267)
T cd04169          11 PDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHEDFSEDTYR   90 (267)
T ss_pred             CCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCchHHHHHHHH
Confidence            68999999999985322111100                    0133444555566777789999999999988877777


Q ss_pred             hccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           61 YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        61 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      .++.+|++|+|+|+++... .....++.....   .++|+++++||+|+..
T Consensus        91 ~l~~aD~~IlVvda~~g~~-~~~~~i~~~~~~---~~~P~iivvNK~D~~~  137 (267)
T cd04169          91 TLTAVDSAVMVIDAAKGVE-PQTRKLFEVCRL---RGIPIITFINKLDREG  137 (267)
T ss_pred             HHHHCCEEEEEEECCCCcc-HHHHHHHHHHHh---cCCCEEEEEECCccCC
Confidence            8899999999999987532 222344443322   3689999999999754

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.

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.69  E-value=5.5e-16  Score=118.60  Aligned_cols=134  Identities=15%  Similarity=0.112  Sum_probs=87.3

Q ss_pred             CCCchhHHHHHHhhCCC----------------CCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQF----------------FDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~----------------~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +++|||||+++|++...                .++.  .-|.+.......++..+.++.+||+||++.|.......+..
T Consensus        21 vd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~--~rG~Ti~~~~~~~~~~~~~~~liDtpGh~~f~~~~~~~~~~   98 (394)
T TIGR00485        21 VDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEK--ARGITINTAHVEYETENRHYAHVDCPGHADYVKNMITGAAQ   98 (394)
T ss_pred             cCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHH--hcCcceeeEEEEEcCCCEEEEEEECCchHHHHHHHHHHHhh
Confidence            47999999999974200                0111  12444445555666666788999999999887666666778


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceE-EEEEeCCCCcccccCC---HHHHHHHHHHcC-----CeEEEEe
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIM-FLVANKVDLEEKRKVK---NEEGELYAQENG-----LSFLETS  135 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~-ivi~nK~D~~~~~~~~---~~~~~~~~~~~~-----~~~~~~S  135 (181)
                      +|++++|+|+.++-. ......+..+...   +.|. ++++||+|+.+..+..   ..+...+++..+     ++++++|
T Consensus        99 ~D~~ilVvda~~g~~-~qt~e~l~~~~~~---gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~~~~~~~~ii~vS  174 (394)
T TIGR00485        99 MDGAILVVSATDGPM-PQTREHILLARQV---GVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYDFPGDDTPIIRGS  174 (394)
T ss_pred             CCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhcCCCccCccEEECc
Confidence            899999999986322 1222333444333   4555 4689999986432211   234555666654     6899999


Q ss_pred             cCCCC
Q 030225          136 AKSAH  140 (181)
Q Consensus       136 a~~~~  140 (181)
                      |.++.
T Consensus       175 a~~g~  179 (394)
T TIGR00485       175 ALKAL  179 (394)
T ss_pred             ccccc
Confidence            99874

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.

>PRK12735 elongation factor Tu; Reviewed

Probab=99.69  E-value=7.2e-16  Score=117.94  Aligned_cols=149  Identities=15%  Similarity=0.141  Sum_probs=96.0

Q ss_pred             CCCchhHHHHHHhhC-------CC---CC----ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            1 MGTGKTSLVLRFVKG-------QF---FD----FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         1 ~~~GKttLl~~l~~~-------~~---~~----~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      +++|||||+++|++.       .+   ..    .....-|.+.......+.....++.|+||||+..|.......+..+|
T Consensus        21 vd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~~~~~aD  100 (396)
T PRK12735         21 VDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGHADYVKNMITGAAQMD  100 (396)
T ss_pred             CCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECCCHHHHHHHHHhhhccCC
Confidence            589999999999862       10   00    00012244444445555555667899999999888776667788999


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEE-EEEeCCCCccccc---CCHHHHHHHHHHcC-----CeEEEEecC
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMF-LVANKVDLEEKRK---VKNEEGELYAQENG-----LSFLETSAK  137 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i-vi~nK~D~~~~~~---~~~~~~~~~~~~~~-----~~~~~~Sa~  137 (181)
                      ++++|+|+.+... .....++..+..   .+.|.+ +++||+|+.+..+   ....+...+....+     ++++++||.
T Consensus       101 ~~llVvda~~g~~-~qt~e~l~~~~~---~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~~~~~~~~ii~~Sa~  176 (396)
T PRK12735        101 GAILVVSAADGPM-PQTREHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSAL  176 (396)
T ss_pred             EEEEEEECCCCCc-hhHHHHHHHHHH---cCCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHcCCCcCceeEEecchh
Confidence            9999999986422 222344444433   346655 5799999864222   11224445555543     678999999


Q ss_pred             CCC----------CHHHHHHHHHHHH
Q 030225          138 SAH----------NVNELFYEIAKRL  153 (181)
Q Consensus       138 ~~~----------gi~~~~~~l~~~~  153 (181)
                      ++.          ++.++++.|...+
T Consensus       177 ~g~n~~~~~~w~~~~~~Ll~~l~~~~  202 (396)
T PRK12735        177 KALEGDDDEEWEAKILELMDAVDSYI  202 (396)
T ss_pred             ccccCCCCCcccccHHHHHHHHHhcC
Confidence            984          6777777776654

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.69  E-value=7.7e-16  Score=120.98  Aligned_cols=106  Identities=17%  Similarity=0.169  Sum_probs=73.3

Q ss_pred             CCCchhHHHHHHhhCCCCCcc-----------------c---cceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ-----------------E---STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM   60 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~-----------------~---~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   60 (181)
                      +++|||||+++|+........                 .   ..-|.++......+....+++++|||||+..|......
T Consensus        19 ~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTPG~~df~~~~~~   98 (526)
T PRK00741         19 PDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTPGHEDFSEDTYR   98 (526)
T ss_pred             CCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECCCchhhHHHHHH
Confidence            589999999999742111000                 0   11133444555556666788999999999988887777


Q ss_pred             hccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           61 YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        61 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      +++.+|++|+|+|+++.-. .....++.....   .+.|+++++||+|+.
T Consensus        99 ~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~---~~iPiiv~iNK~D~~  144 (526)
T PRK00741         99 TLTAVDSALMVIDAAKGVE-PQTRKLMEVCRL---RDTPIFTFINKLDRD  144 (526)
T ss_pred             HHHHCCEEEEEEecCCCCC-HHHHHHHHHHHh---cCCCEEEEEECCccc
Confidence            8899999999999987532 123344444332   478999999999973

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

Probab=99.68  E-value=7.9e-16  Score=100.11  Aligned_cols=128  Identities=20%  Similarity=0.245  Sum_probs=88.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCCh----hhhhccchhhccCCcEEEEEEECCC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ----ERYHSLAPMYYRGAAAAVVVYDITS   76 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~----~~~~~~~~~~~~~~d~~i~v~d~~~   76 (181)
                      +|||||||+++|.+...  .+..|..+.+       .+     .++||||.    ..+....-....+||++++|.|+++
T Consensus        10 ~g~GKTTL~q~L~~~~~--~~~KTq~i~~-------~~-----~~IDTPGEyiE~~~~y~aLi~ta~dad~V~ll~dat~   75 (143)
T PF10662_consen   10 SGSGKTTLAQALNGEEI--RYKKTQAIEY-------YD-----NTIDTPGEYIENPRFYHALIVTAQDADVVLLLQDATE   75 (143)
T ss_pred             CCCCHHHHHHHHcCCCC--CcCccceeEe-------cc-----cEEECChhheeCHHHHHHHHHHHhhCCEEEEEecCCC
Confidence            58999999999998765  3334443222       11     36899995    2233323344568999999999998


Q ss_pred             hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHH
Q 030225           77 MDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        77 ~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      +.+.-     -..+...  -++|++=|+||+|+.. .+...+.+.++.+..|+ .+|++|+.+|+|++++.++|-
T Consensus        76 ~~~~~-----pP~fa~~--f~~pvIGVITK~Dl~~-~~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~~L~  142 (143)
T PF10662_consen   76 PRSVF-----PPGFASM--FNKPVIGVITKIDLPS-DDANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKDYLE  142 (143)
T ss_pred             CCccC-----Cchhhcc--cCCCEEEEEECccCcc-chhhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHHHHh
Confidence            65321     0111111  3579999999999963 23345667778888886 489999999999999999884

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

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.67  E-value=2.8e-15  Score=106.23  Aligned_cols=108  Identities=16%  Similarity=0.133  Sum_probs=71.0

Q ss_pred             EEEEEEEeCCChhhhhccchhhcc--CCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC--
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYR--GAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV--  115 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~--  115 (181)
                      ...+.++|+||+..|.......+.  .+|++++|+|+..+.. .....++..+...   +.|+++++||+|+......  
T Consensus        83 ~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~-~~d~~~l~~l~~~---~ip~ivvvNK~D~~~~~~~~~  158 (224)
T cd04165          83 SKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGII-GMTKEHLGLALAL---NIPVFVVVTKIDLAPANILQE  158 (224)
T ss_pred             CcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCEEEEEECccccCHHHHHH
Confidence            357889999999888655444443  6899999999876432 2223444444333   5789999999998542211  


Q ss_pred             CHHHHHHHHHH--------------------------cCCeEEEEecCCCCCHHHHHHHHHH
Q 030225          116 KNEEGELYAQE--------------------------NGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus       116 ~~~~~~~~~~~--------------------------~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      ...+...+.+.                          ..+++|.+||.+|+|++++...|..
T Consensus       159 ~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~~  220 (224)
T cd04165         159 TLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLNL  220 (224)
T ss_pred             HHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHHh
Confidence            11122222220                          1248999999999999999988743

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

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.67  E-value=1e-15  Score=116.95  Aligned_cols=149  Identities=19%  Similarity=0.188  Sum_probs=99.6

Q ss_pred             CchhHHHHHHhhCCCCCcc-------------ccceeeeEEEEEEEEC---CeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            3 TGKTSLVLRFVKGQFFDFQ-------------ESTIGAAFFTQVLSLN---EVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         3 ~GKttLl~~l~~~~~~~~~-------------~~t~~~~~~~~~~~~~---~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      =|||||..+|+........             ..--|+++...+..+-   +..+.++++|||||.+|.......+..|+
T Consensus        71 HGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTPGHvDFs~EVsRslaac~  150 (650)
T KOG0462|consen   71 HGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTPGHVDFSGEVSRSLAACD  150 (650)
T ss_pred             CCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecCCCcccccceehehhhhcC
Confidence            3999999999864331110             0112444444443333   45599999999999999999999999999


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCC-HHHHHHHHHHcCCeEEEEecCCCCCHHHH
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK-NEEGELYAQENGLSFLETSAKSAHNVNEL  145 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~-~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~  145 (181)
                      ++++|+|++.+---+.+-.++..+    ..+..++.|+||+|+...+... ..+...........++.+||++|.|+.++
T Consensus       151 G~lLvVDA~qGvqAQT~anf~lAf----e~~L~iIpVlNKIDlp~adpe~V~~q~~~lF~~~~~~~i~vSAK~G~~v~~l  226 (650)
T KOG0462|consen  151 GALLVVDASQGVQAQTVANFYLAF----EAGLAIIPVLNKIDLPSADPERVENQLFELFDIPPAEVIYVSAKTGLNVEEL  226 (650)
T ss_pred             ceEEEEEcCcCchHHHHHHHHHHH----HcCCeEEEeeeccCCCCCCHHHHHHHHHHHhcCCccceEEEEeccCccHHHH
Confidence            999999998643322222222222    2456799999999996543311 11222222222357899999999999999


Q ss_pred             HHHHHHHHHh
Q 030225          146 FYEIAKRLAE  155 (181)
Q Consensus       146 ~~~l~~~~~~  155 (181)
                      ++.+++.+..
T Consensus       227 L~AII~rVPp  236 (650)
T KOG0462|consen  227 LEAIIRRVPP  236 (650)
T ss_pred             HHHHHhhCCC
Confidence            9998876643

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.67  E-value=1.6e-15  Score=109.63  Aligned_cols=151  Identities=20%  Similarity=0.179  Sum_probs=102.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh-----hhhccch---hhc-cCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE-----RYHSLAP---MYY-RGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~-----~~~~~~~---~~~-~~~d~~i~v   71 (181)
                      ||||||||++++.+.+....  +...++-......++.+..+++++||||--     +.+....   ..+ .=.++++|+
T Consensus       177 PNVGKSSlv~~lT~AkpEvA--~YPFTTK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~IlF~  254 (346)
T COG1084         177 PNVGKSSLVRKLTTAKPEVA--PYPFTTKGIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFL  254 (346)
T ss_pred             CCCcHHHHHHHHhcCCCccC--CCCccccceeEeeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeEEEE
Confidence            89999999999998765433  222333344455566666789999999941     1111110   011 125889999


Q ss_pred             EECCC--hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHHH
Q 030225           72 YDITS--MDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE  148 (181)
Q Consensus        72 ~d~~~--~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~~  148 (181)
                      +|++.  .-+.+....++..+....  ..|+++|.||+|..+...+.  +...+...-+ .....+++..+.+++.+...
T Consensus       255 ~D~Se~cgy~lE~Q~~L~~eIk~~f--~~p~v~V~nK~D~~~~e~~~--~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~  330 (346)
T COG1084         255 FDPSETCGYSLEEQISLLEEIKELF--KAPIVVVINKIDIADEEKLE--EIEASVLEEGGEEPLKISATKGCGLDKLREE  330 (346)
T ss_pred             EcCccccCCCHHHHHHHHHHHHHhc--CCCeEEEEecccccchhHHH--HHHHHHHhhccccccceeeeehhhHHHHHHH
Confidence            99985  356788888889998875  38999999999986544432  2232233334 44788899999999988888


Q ss_pred             HHHHHHhhC
Q 030225          149 IAKRLAEVN  157 (181)
Q Consensus       149 l~~~~~~~~  157 (181)
                      +...+.+..
T Consensus       331 v~~~a~~~~  339 (346)
T COG1084         331 VRKTALEPL  339 (346)
T ss_pred             HHHHhhchh
Confidence            887765543

>CHL00071 tufA elongation factor Tu

Probab=99.67  E-value=2e-15  Score=115.97  Aligned_cols=137  Identities=15%  Similarity=0.101  Sum_probs=89.3

Q ss_pred             CCCchhHHHHHHhhCCCCCc--------------cccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            1 MGTGKTSLVLRFVKGQFFDF--------------QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~--------------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      +++|||||+++|++......              ....-|.++......+.....++.++|+||+..|.......+..+|
T Consensus        21 ~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~iDtPGh~~~~~~~~~~~~~~D  100 (409)
T CHL00071         21 VDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHVDCPGHADYVKNMITGAAQMD  100 (409)
T ss_pred             CCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEEEECCChHHHHHHHHHHHHhCC
Confidence            68999999999997422100              0011344444444555556668889999999888777677788999


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCce-EEEEEeCCCCcccccC---CHHHHHHHHHHcC-----CeEEEEecC
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRKV---KNEEGELYAQENG-----LSFLETSAK  137 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivi~nK~D~~~~~~~---~~~~~~~~~~~~~-----~~~~~~Sa~  137 (181)
                      ++++|+|+...-. ......+..+...   +.| +++++||+|+.+..+.   ...+...+.+..+     ++++.+||.
T Consensus       101 ~~ilVvda~~g~~-~qt~~~~~~~~~~---g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~ii~~Sa~  176 (409)
T CHL00071        101 GAILVVSAADGPM-PQTKEHILLAKQV---GVPNIVVFLNKEDQVDDEELLELVELEVRELLSKYDFPGDDIPIVSGSAL  176 (409)
T ss_pred             EEEEEEECCCCCc-HHHHHHHHHHHHc---CCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCCCCCcceEEEcchh
Confidence            9999999885422 2233344444333   457 6788999998653221   1234445555543     679999999


Q ss_pred             CCCC
Q 030225          138 SAHN  141 (181)
Q Consensus       138 ~~~g  141 (181)
                      +|.+
T Consensus       177 ~g~n  180 (409)
T CHL00071        177 LALE  180 (409)
T ss_pred             hccc
Confidence            8864

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.66  E-value=2.8e-16  Score=114.57  Aligned_cols=145  Identities=18%  Similarity=0.129  Sum_probs=90.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccc----------------eeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQEST----------------IGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t----------------~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +|+|||||+++|+...........                .+.+.......+....+++.+|||||+..+...+..++..
T Consensus         8 ~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~~f~~~~~~~l~~   87 (268)
T cd04170           8 SGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKGHKINLIDTPGYADFVGETRAALRA   87 (268)
T ss_pred             CCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEECCEEEEEEECcCHHHHHHHHHHHHHH
Confidence            699999999999854322111100                0122222333344455688999999998887778888999


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeE--EEEecCCCCCH
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSF--LETSAKSAHNV  142 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~--~~~Sa~~~~gi  142 (181)
                      +|++++|+|+++........ .+..+..   .+.|.++++||+|+....  ..+....+.+..+.++  +.++..++.++
T Consensus        88 aD~~i~Vvd~~~g~~~~~~~-~~~~~~~---~~~p~iivvNK~D~~~~~--~~~~~~~l~~~~~~~~~~~~ip~~~~~~~  161 (268)
T cd04170          88 ADAALVVVSAQSGVEVGTEK-LWEFADE---AGIPRIIFINKMDRERAD--FDKTLAALQEAFGRPVVPLQLPIGEGDDF  161 (268)
T ss_pred             CCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCCEEEEEECCccCCCC--HHHHHHHHHHHhCCCeEEEEecccCCCce
Confidence            99999999999765443322 2233332   367999999999986431  1222333334445444  44456677776


Q ss_pred             HHHHHHHHH
Q 030225          143 NELFYEIAK  151 (181)
Q Consensus       143 ~~~~~~l~~  151 (181)
                      ..+.+.+..
T Consensus       162 ~~~vd~~~~  170 (268)
T cd04170         162 KGVVDLLTE  170 (268)
T ss_pred             eEEEEcccC
Confidence            666555544

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

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.66  E-value=5.8e-15  Score=122.60  Aligned_cols=145  Identities=22%  Similarity=0.205  Sum_probs=99.3

Q ss_pred             CchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeE----------------EEEEEEeCCChhhhhccchhhccCCc
Q 030225            3 TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVT----------------IKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         3 ~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~----------------~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      ++|||||.++.+......--..++..+....+..+...                -.+.||||||++.|..+....+..+|
T Consensus       472 ~~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~~~aD  551 (1049)
T PRK14845        472 VHNTTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGGSLAD  551 (1049)
T ss_pred             cccccHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhcccCC
Confidence            57999999999888766555555555555555544211                12789999999999888888888999


Q ss_pred             EEEEEEECCC---hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCH----------------HHHH----HH
Q 030225           67 AAVVVYDITS---MDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKN----------------EEGE----LY  123 (181)
Q Consensus        67 ~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~----------------~~~~----~~  123 (181)
                      ++++|+|+++   +.+++.+    ..+..   .++|+++++||+|+...+....                .+..    ..
T Consensus       552 ivlLVVDa~~Gi~~qT~e~I----~~lk~---~~iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~~~~el~~~l~~v  624 (1049)
T PRK14845        552 LAVLVVDINEGFKPQTIEAI----NILRQ---YKTPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQHALTELEIKLYEL  624 (1049)
T ss_pred             EEEEEEECcccCCHhHHHHH----HHHHH---cCCCEEEEEECCCCccccccccchhhhhhhhhhHHHHHHHHHHHHHHH
Confidence            9999999986   3344332    22222   3579999999999864322100                0000    00


Q ss_pred             ---HHHc---------------CCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225          124 ---AQEN---------------GLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       124 ---~~~~---------------~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                         ..+.               .++++++||++|+|+.+++.+|.....
T Consensus       625 ~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~~  673 (1049)
T PRK14845        625 IGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLAQ  673 (1049)
T ss_pred             hhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhhH
Confidence               1111               358899999999999999998876544

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.66  E-value=8.9e-16  Score=111.56  Aligned_cols=107  Identities=18%  Similarity=0.108  Sum_probs=73.9

Q ss_pred             CCCchhHHHHHHhhCCCCCcc-------------c---cceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ-------------E---STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~-------------~---~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +|+|||||+++|+........             .   ..-|+++......+.....++.+|||||+..+...+...++.
T Consensus         8 ~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~   87 (270)
T cd01886           8 IDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKDHRINIIDTPGHVDFTIEVERSLRV   87 (270)
T ss_pred             CCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECCEEEEEEECCCcHHHHHHHHHHHHH
Confidence            689999999999752221100             0   112344444444555556789999999999888888899999


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      +|++++|+|+.+...-. ....+..+..   .++|.++++||+|+.+
T Consensus        88 aD~ailVVDa~~g~~~~-t~~~~~~~~~---~~~p~ivviNK~D~~~  130 (270)
T cd01886          88 LDGAVAVFDAVAGVEPQ-TETVWRQADR---YNVPRIAFVNKMDRTG  130 (270)
T ss_pred             cCEEEEEEECCCCCCHH-HHHHHHHHHH---cCCCEEEEEECCCCCC
Confidence            99999999998743221 2333444433   3578999999999864

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

>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=99.65  E-value=1.2e-15  Score=107.85  Aligned_cols=156  Identities=18%  Similarity=0.252  Sum_probs=95.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEE-CCeEEEEEEEeCCChhhhhc-----cchhhccCCcEEEEEEEC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSL-NEVTIKFDIWDTAGQERYHS-----LAPMYYRGAAAAVVVYDI   74 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~-----~~~~~~~~~d~~i~v~d~   74 (181)
                      ++|||||+.+.+.++..+.+. ...+.+.......+ ..+++.+++||+||+..+..     .....+++++++|||+|+
T Consensus         8 ~~SGKTSi~~vIF~~~~p~dT-~~L~~T~~ve~~~v~~~~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~LIyV~D~   86 (232)
T PF04670_consen    8 RRSGKTSIRSVIFHKYSPRDT-LRLEPTIDVEKSHVRFLSFLPLNIWDCPGQDDFMENYFNSQREEIFSNVGVLIYVFDA   86 (232)
T ss_dssp             TTSSHHHHHHHHHS---GGGG-GG-----SEEEEEEECTTSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESEEEEEEET
T ss_pred             CCCChhhHHHHHHcCCCchhc-cccCCcCCceEEEEecCCCcEEEEEEcCCccccccccccccHHHHHhccCEEEEEEEc
Confidence            589999998777755443333 44444444444444 24566899999999864433     356779999999999999


Q ss_pred             CChhH---HHHHHHHHHHHHHhCCCCceEEEEEeCCCCccc--ccC----CHHHHHHHHHHcC---CeEEEEecCCCCCH
Q 030225           75 TSMDS---FERAKKWVQELQRQGNPNLIMFLVANKVDLEEK--RKV----KNEEGELYAQENG---LSFLETSAKSAHNV  142 (181)
Q Consensus        75 ~~~~s---~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~--~~~----~~~~~~~~~~~~~---~~~~~~Sa~~~~gi  142 (181)
                      .+.+.   +..+...+..+.+. .++..+.++++|.|+...  +..    ..+.....+...+   +.++.+|..+ +.+
T Consensus        87 qs~~~~~~l~~~~~~i~~l~~~-sp~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~TSI~D-~Sl  164 (232)
T PF04670_consen   87 QSDDYDEDLAYLSDCIEALRQY-SPNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFLTSIWD-ESL  164 (232)
T ss_dssp             T-STCHHHHHHHHHHHHHHHHH-STT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE-TTS-THH
T ss_pred             ccccHHHHHHHHHHHHHHHHHh-CCCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEeccCcC-cHH
Confidence            95443   33344445555555 488999999999998532  111    1122333444455   7899999999 578


Q ss_pred             HHHHHHHHHHHHhhCCC
Q 030225          143 NELFYEIAKRLAEVNPS  159 (181)
Q Consensus       143 ~~~~~~l~~~~~~~~~~  159 (181)
                      -+.+..+++.+..+.+.
T Consensus       165 y~A~S~Ivq~LiP~~~~  181 (232)
T PF04670_consen  165 YEAWSKIVQKLIPNLST  181 (232)
T ss_dssp             HHHHHHHHHTTSTTHCC
T ss_pred             HHHHHHHHHHHcccHHH
Confidence            88888888877765443

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.

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.65  E-value=3.3e-15  Score=108.57  Aligned_cols=156  Identities=19%  Similarity=0.144  Sum_probs=98.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh----hhccchh---hccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER----YHSLAPM---YYRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~---~~~~~d~~i~v~d   73 (181)
                      ||+||||||+++...+...-.-|.++..-..-.+.+ ...-.|.+-|+||.-+    -..+-..   .++.+.++++|+|
T Consensus       168 PNaGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~-~~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt~vL~hviD  246 (369)
T COG0536         168 PNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRV-DGGESFVVADIPGLIEGASEGVGLGLRFLRHIERTRVLLHVID  246 (369)
T ss_pred             CCCcHHHHHHHHhhcCCcccCCccccccCcccEEEe-cCCCcEEEecCcccccccccCCCccHHHHHHHHhhheeEEEEe
Confidence            899999999999986543211121111111111222 2223578999999532    1222233   3567899999999


Q ss_pred             CCChh---HHHHHHHHHHHHHHhC--CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEE-EecCCCCCHHHHHH
Q 030225           74 ITSMD---SFERAKKWVQELQRQG--NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLE-TSAKSAHNVNELFY  147 (181)
Q Consensus        74 ~~~~~---s~~~~~~~~~~~~~~~--~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~-~Sa~~~~gi~~~~~  147 (181)
                      ++..+   ..+..+....++..+.  ..++|.++++||+|+....+........+.+..+...+. +||.+++|++++..
T Consensus       247 ~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~~~~~~ISa~t~~g~~~L~~  326 (369)
T COG0536         247 LSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYLISALTREGLDELLR  326 (369)
T ss_pred             cCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCCCcceeeehhcccCHHHHHH
Confidence            98644   3455555555554432  267899999999996554443334444455555544332 99999999999999


Q ss_pred             HHHHHHHhhC
Q 030225          148 EIAKRLAEVN  157 (181)
Q Consensus       148 ~l~~~~~~~~  157 (181)
                      .+.+.+.+..
T Consensus       327 ~~~~~l~~~~  336 (369)
T COG0536         327 ALAELLEETK  336 (369)
T ss_pred             HHHHHHHHhh
Confidence            9999887774

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

Probab=99.65  E-value=3e-15  Score=112.78  Aligned_cols=147  Identities=18%  Similarity=0.169  Sum_probs=101.6

Q ss_pred             CchhHHHHHHhhCCCC---------------CccccceeeeEEEEEEEE---CCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            3 TGKTSLVLRFVKGQFF---------------DFQESTIGAAFFTQVLSL---NEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         3 ~GKttLl~~l~~~~~~---------------~~~~~t~~~~~~~~~~~~---~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      =|||||..||+.....               .+....+++-.....+.+   ++..+.++++|||||..|.......+..
T Consensus        20 HGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGHVDFsYEVSRSLAA   99 (603)
T COG0481          20 HGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSYEVSRSLAA   99 (603)
T ss_pred             CCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCCccceEEEehhhHhh
Confidence            3999999999853221               111122332222223222   4578999999999999999888888999


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC---eEEEEecCCCCC
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL---SFLETSAKSAHN  141 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~---~~~~~Sa~~~~g  141 (181)
                      |.+.++|+|++.+-.-+.+-..+..+    ..+..++-|+||+||.....  +....++-.-.|+   ..+.+||++|.|
T Consensus       100 CEGalLvVDAsQGveAQTlAN~YlAl----e~~LeIiPViNKIDLP~Adp--ervk~eIe~~iGid~~dav~~SAKtG~g  173 (603)
T COG0481         100 CEGALLVVDASQGVEAQTLANVYLAL----ENNLEIIPVLNKIDLPAADP--ERVKQEIEDIIGIDASDAVLVSAKTGIG  173 (603)
T ss_pred             CCCcEEEEECccchHHHHHHHHHHHH----HcCcEEEEeeecccCCCCCH--HHHHHHHHHHhCCCcchheeEecccCCC
Confidence            99999999999764444444443333    24677999999999965332  2222333344565   468999999999


Q ss_pred             HHHHHHHHHHHHHh
Q 030225          142 VNELFYEIAKRLAE  155 (181)
Q Consensus       142 i~~~~~~l~~~~~~  155 (181)
                      |+++++.|++.+..
T Consensus       174 I~~iLe~Iv~~iP~  187 (603)
T COG0481         174 IEDVLEAIVEKIPP  187 (603)
T ss_pred             HHHHHHHHHhhCCC
Confidence            99999999887654

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.64  E-value=2.9e-15  Score=116.71  Aligned_cols=142  Identities=19%  Similarity=0.171  Sum_probs=86.9

Q ss_pred             CCCchhHHHHHHhhCCCCCcc------------ccc-------------------eeeeEEEEEEEECCeEEEEEEEeCC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ------------EST-------------------IGAAFFTQVLSLNEVTIKFDIWDTA   49 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~------------~~t-------------------~~~~~~~~~~~~~~~~~~~~i~D~~   49 (181)
                      +++|||||+.+|+........            ..+                   -|.++......+.....++.|||||
T Consensus        36 vdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~~~~~~i~~iDTP  115 (474)
T PRK05124         36 VDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFSTEKRKFIIADTP  115 (474)
T ss_pred             CCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEeccCCcEEEEEECC
Confidence            589999999999854321110            000                   1222333333444556688999999


Q ss_pred             ChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHH----HHHHHH
Q 030225           50 GQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEE----GELYAQ  125 (181)
Q Consensus        50 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~----~~~~~~  125 (181)
                      |+..|.......+..+|++++|+|+..+-. ......+..+...  ..+|+++++||+|+.+..+....+    ...+..
T Consensus       116 Gh~~f~~~~~~~l~~aD~allVVDa~~G~~-~qt~~~~~l~~~l--g~~~iIvvvNKiD~~~~~~~~~~~i~~~l~~~~~  192 (474)
T PRK05124        116 GHEQYTRNMATGASTCDLAILLIDARKGVL-DQTRRHSFIATLL--GIKHLVVAVNKMDLVDYSEEVFERIREDYLTFAE  192 (474)
T ss_pred             CcHHHHHHHHHHHhhCCEEEEEEECCCCcc-ccchHHHHHHHHh--CCCceEEEEEeeccccchhHHHHHHHHHHHHHHH
Confidence            998886655556799999999999876421 1111222222222  124788999999986432211122    222333


Q ss_pred             Hc----CCeEEEEecCCCCCHHHH
Q 030225          126 EN----GLSFLETSAKSAHNVNEL  145 (181)
Q Consensus       126 ~~----~~~~~~~Sa~~~~gi~~~  145 (181)
                      ..    ..+++++||++|+|+.++
T Consensus       193 ~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        193 QLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             hcCCCCCceEEEEEeecCCCcccc
Confidence            33    367999999999999765

>TIGR00503 prfC peptide chain release factor 3

Probab=99.64  E-value=5.6e-15  Score=116.18  Aligned_cols=105  Identities=17%  Similarity=0.149  Sum_probs=73.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccc--------------------cceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQE--------------------STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM   60 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~--------------------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   60 (181)
                      +++|||||+++|+.........                    ...|.++......+++..+++.+|||||+..|......
T Consensus        20 ~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTPG~~df~~~~~~   99 (527)
T TIGR00503        20 PDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTPGHEDFSEDTYR   99 (527)
T ss_pred             CCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECCChhhHHHHHHH
Confidence            6899999999986421111000                    11244555556666777789999999999888876677


Q ss_pred             hccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCC
Q 030225           61 YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL  109 (181)
Q Consensus        61 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~  109 (181)
                      .+..+|++|+|+|+++.- ......++.....   .++|+++++||+|+
T Consensus       100 ~l~~aD~aIlVvDa~~gv-~~~t~~l~~~~~~---~~~PiivviNKiD~  144 (527)
T TIGR00503       100 TLTAVDNCLMVIDAAKGV-ETRTRKLMEVTRL---RDTPIFTFMNKLDR  144 (527)
T ss_pred             HHHhCCEEEEEEECCCCC-CHHHHHHHHHHHh---cCCCEEEEEECccc
Confidence            889999999999998641 1223344443322   46899999999997

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.

>cd01850 CDC_Septin CDC/Septin

Probab=99.64  E-value=7.4e-15  Score=107.13  Aligned_cols=133  Identities=14%  Similarity=0.131  Sum_probs=86.1

Q ss_pred             CCCchhHHHHHHhhCCCCCc----------cccceeeeEEEEEEEECCeEEEEEEEeCCChhhh----------------
Q 030225            1 MGTGKTSLVLRFVKGQFFDF----------QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY----------------   54 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~----------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----------------   54 (181)
                      +|+|||||+|+|++..+...          ..+|++.......+..++..+++.+|||||-...                
T Consensus        13 sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~~~~i~~yi~~   92 (276)
T cd01850          13 SGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDCWKPIVDYIDD   92 (276)
T ss_pred             CCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhhHHHHHHHHHH
Confidence            69999999999998876543          3455556666666667788899999999993211                


Q ss_pred             ----------hccchhhcc--CCcEEEEEEECCChhHHHHH-HHHHHHHHHhCCCCceEEEEEeCCCCcc--cccCCHHH
Q 030225           55 ----------HSLAPMYYR--GAAAAVVVYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDLEE--KRKVKNEE  119 (181)
Q Consensus        55 ----------~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~--~~~~~~~~  119 (181)
                                ...+...+.  .+|+++|+++.+.. .+... ...++.+.    ..+|+++|+||+|+..  ........
T Consensus        93 q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~-~l~~~D~~~lk~l~----~~v~vi~VinK~D~l~~~e~~~~k~~  167 (276)
T cd01850          93 QFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGH-GLKPLDIEFMKRLS----KRVNIIPVIAKADTLTPEELKEFKQR  167 (276)
T ss_pred             HHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCC-CCCHHHHHHHHHHh----ccCCEEEEEECCCcCCHHHHHHHHHH
Confidence                      111112333  46778888886641 11111 22233332    2589999999999854  22334455


Q ss_pred             HHHHHHHcCCeEEEEecCC
Q 030225          120 GELYAQENGLSFLETSAKS  138 (181)
Q Consensus       120 ~~~~~~~~~~~~~~~Sa~~  138 (181)
                      ..+.+..+++.++......
T Consensus       168 i~~~l~~~~i~~~~~~~~~  186 (276)
T cd01850         168 IMEDIEEHNIKIYKFPEDE  186 (276)
T ss_pred             HHHHHHHcCCceECCCCCc
Confidence            6677888899988776543

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.

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.64  E-value=4.2e-15  Score=115.00  Aligned_cols=115  Identities=18%  Similarity=0.209  Sum_probs=80.6

Q ss_pred             eeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHH-------HHHHHHHHHHHhCCCCc
Q 030225           26 GAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFE-------RAKKWVQELQRQGNPNL   98 (181)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~-------~~~~~~~~~~~~~~~~~   98 (181)
                      |.+.......+......+.++|+|||.+|.......+..+|++|+|+|+++ ..|+       ..++.+......   ++
T Consensus        70 GiTi~~~~~~~~~~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~-G~~e~g~~~~~qT~eh~~~~~~~---gi  145 (447)
T PLN00043         70 GITIDIALWKFETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTT-GGFEAGISKDGQTREHALLAFTL---GV  145 (447)
T ss_pred             CceEEEEEEEecCCCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEccc-CceecccCCCchHHHHHHHHHHc---CC
Confidence            334444455566677889999999999999988889999999999999986 3232       334444433332   44


Q ss_pred             -eEEEEEeCCCCccc------ccCCHHHHHHHHHHcC-----CeEEEEecCCCCCHHH
Q 030225           99 -IMFLVANKVDLEEK------RKVKNEEGELYAQENG-----LSFLETSAKSAHNVNE  144 (181)
Q Consensus        99 -p~ivi~nK~D~~~~------~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~gi~~  144 (181)
                       ++++++||+|+.+.      -+...++...++++.+     ++++++||++|+|+.+
T Consensus       146 ~~iIV~vNKmD~~~~~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        146 KQMICCCNKMDATTPKYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             CcEEEEEEcccCCchhhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence             47888999997521      0112345666676665     5799999999999853

>PRK13351 elongation factor G; Reviewed

Probab=99.64  E-value=4.7e-15  Score=120.77  Aligned_cols=106  Identities=20%  Similarity=0.173  Sum_probs=73.8

Q ss_pred             CCCchhHHHHHHhhCCCCC-------------cccc---ceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFD-------------FQES---TIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~-------------~~~~---t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +|+|||||+++|+......             .+.+   ..+.++......+.+...++.+|||||+.+|...+..+++.
T Consensus        17 ~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~df~~~~~~~l~~   96 (687)
T PRK13351         17 IDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHIDFTGEVERSLRV   96 (687)
T ss_pred             CCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECCEEEEEEECCCcHHHHHHHHHHHHh
Confidence            5899999999998532110             0000   11222333333444456789999999999998888999999


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      +|++++|+|+++.........| ..+..   .++|+++++||+|+.
T Consensus        97 aD~~ilVvd~~~~~~~~~~~~~-~~~~~---~~~p~iiviNK~D~~  138 (687)
T PRK13351         97 LDGAVVVFDAVTGVQPQTETVW-RQADR---YGIPRLIFINKMDRV  138 (687)
T ss_pred             CCEEEEEEeCCCCCCHHHHHHH-HHHHh---cCCCEEEEEECCCCC
Confidence            9999999999987665544333 33322   368999999999974

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.63  E-value=7.8e-15  Score=108.60  Aligned_cols=75  Identities=16%  Similarity=0.238  Sum_probs=51.1

Q ss_pred             CCCchhHHHHHHhhCCCC------CccccceeeeEEEEE---------------EEECC-eEEEEEEEeCCCh----hhh
Q 030225            1 MGTGKTSLVLRFVKGQFF------DFQESTIGAAFFTQV---------------LSLNE-VTIKFDIWDTAGQ----ERY   54 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~------~~~~~t~~~~~~~~~---------------~~~~~-~~~~~~i~D~~G~----~~~   54 (181)
                      ||||||||+++|.+....      .+..|++|..+....               ...++ ..+.+++||+||.    ..+
T Consensus         7 pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv~ga~~~   86 (318)
T cd01899           7 PNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLVPGAHEG   86 (318)
T ss_pred             CCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCCCCccch
Confidence            799999999999987643      233455554332211               00122 3467999999997    445


Q ss_pred             hccchhh---ccCCcEEEEEEECC
Q 030225           55 HSLAPMY---YRGAAAAVVVYDIT   75 (181)
Q Consensus        55 ~~~~~~~---~~~~d~~i~v~d~~   75 (181)
                      ..+...+   ++++|++++|+|++
T Consensus        87 ~glg~~fL~~ir~aD~ii~Vvd~~  110 (318)
T cd01899          87 KGLGNKFLDDLRDADALIHVVDAS  110 (318)
T ss_pred             hhHHHHHHHHHHHCCEEEEEEeCC
Confidence            5554554   89999999999997

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.

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.63  E-value=1.9e-14  Score=110.18  Aligned_cols=146  Identities=16%  Similarity=0.122  Sum_probs=106.4

Q ss_pred             CchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHH
Q 030225            3 TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFER   82 (181)
Q Consensus         3 ~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~   82 (181)
                      =||||||..|-+.......-..++..+....+.++.+ -.+.|.|||||..|..|+..-..-+|++++|+.+.|.---+ 
T Consensus       164 HGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p~G-~~iTFLDTPGHaAF~aMRaRGA~vtDIvVLVVAadDGVmpQ-  241 (683)
T KOG1145|consen  164 HGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLPSG-KSITFLDTPGHAAFSAMRARGANVTDIVVLVVAADDGVMPQ-  241 (683)
T ss_pred             CChhhHHHHHhhCceehhhcCCccceeceEEEecCCC-CEEEEecCCcHHHHHHHHhccCccccEEEEEEEccCCccHh-
Confidence            3999999999987776655555655555666666633 57889999999999999998899999999999988742211 


Q ss_pred             HHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC---------CeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           83 AKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG---------LSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        83 ~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                         -++.+......+.|+++.+||+|..+   -..+...+....+|         ..++++||++|+|++.+.+.+.-++
T Consensus       242 ---T~EaIkhAk~A~VpiVvAinKiDkp~---a~pekv~~eL~~~gi~~E~~GGdVQvipiSAl~g~nl~~L~eaill~A  315 (683)
T KOG1145|consen  242 ---TLEAIKHAKSANVPIVVAINKIDKPG---ANPEKVKRELLSQGIVVEDLGGDVQVIPISALTGENLDLLEEAILLLA  315 (683)
T ss_pred             ---HHHHHHHHHhcCCCEEEEEeccCCCC---CCHHHHHHHHHHcCccHHHcCCceeEEEeecccCCChHHHHHHHHHHH
Confidence               12233333346899999999999753   22334433333343         4789999999999999999887655


Q ss_pred             Hhh
Q 030225          154 AEV  156 (181)
Q Consensus       154 ~~~  156 (181)
                      .-+
T Consensus       316 e~m  318 (683)
T KOG1145|consen  316 EVM  318 (683)
T ss_pred             HHh
Confidence            443

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.62  E-value=4.8e-15  Score=104.68  Aligned_cols=69  Identities=19%  Similarity=0.193  Sum_probs=54.0

Q ss_pred             CeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           38 EVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        38 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      +..+.+.+|||||+..|......+++.+|++++|+|++++..... ...+.....   .+.|+++++||+|+.
T Consensus        70 ~~~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t-~~~l~~~~~---~~~p~ilviNKiD~~  138 (222)
T cd01885          70 GNEYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEGVCVQT-ETVLRQALK---ERVKPVLVINKIDRL  138 (222)
T ss_pred             CCceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECCCcc
Confidence            447889999999999999988999999999999999997654433 223333322   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

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.62  E-value=6.2e-15  Score=113.11  Aligned_cols=111  Identities=22%  Similarity=0.184  Sum_probs=72.0

Q ss_pred             EEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           31 TQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        31 ~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      .....+.....++.|||+||+..|.......+..+|++++|+|+..+.. ....+.+..+...  ..+++++++||+|+.
T Consensus        70 ~~~~~~~~~~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~-~qt~~~~~~~~~~--~~~~iivviNK~D~~  146 (406)
T TIGR02034        70 VAYRYFSTDKRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVL-EQTRRHSYIASLL--GIRHVVLAVNKMDLV  146 (406)
T ss_pred             eeeEEEccCCeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCc-cccHHHHHHHHHc--CCCcEEEEEEecccc
Confidence            3334444455688999999999887666677889999999999875422 1122222333222  234688899999986


Q ss_pred             ccccCC----HHHHHHHHHHcC---CeEEEEecCCCCCHHH
Q 030225          111 EKRKVK----NEEGELYAQENG---LSFLETSAKSAHNVNE  144 (181)
Q Consensus       111 ~~~~~~----~~~~~~~~~~~~---~~~~~~Sa~~~~gi~~  144 (181)
                      +..+..    .++...+.+..+   ++++++||++|+|+.+
T Consensus       147 ~~~~~~~~~i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~  187 (406)
T TIGR02034       147 DYDEEVFENIKKDYLAFAEQLGFRDVTFIPLSALKGDNVVS  187 (406)
T ss_pred             cchHHHHHHHHHHHHHHHHHcCCCCccEEEeecccCCCCcc
Confidence            422211    122223334444   4699999999999885

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).

>PLN03126 Elongation factor Tu; Provisional

Probab=99.62  E-value=1.6e-14  Score=112.25  Aligned_cols=137  Identities=15%  Similarity=0.107  Sum_probs=88.5

Q ss_pred             CCCchhHHHHHHhhCCC------CC--------ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            1 MGTGKTSLVLRFVKGQF------FD--------FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~------~~--------~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      +++|||||+++|+....      ..        .....-|.++......++....++.++|+||+..|.......+..+|
T Consensus        90 vd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~~f~~~~~~g~~~aD  169 (478)
T PLN03126         90 VDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGHADYVKNMITGAAQMD  169 (478)
T ss_pred             CCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCHHHHHHHHHHHHhhCC
Confidence            58999999999995211      00        00122344444444444445568899999999998877777788999


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCce-EEEEEeCCCCcccccC---CHHHHHHHHHHc-----CCeEEEEecC
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRKV---KNEEGELYAQEN-----GLSFLETSAK  137 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivi~nK~D~~~~~~~---~~~~~~~~~~~~-----~~~~~~~Sa~  137 (181)
                      ++++|+|+.+... ...+.++..+...   ++| +++++||+|+.+..+.   ...+...+.+..     +++++.+||.
T Consensus       170 ~ailVVda~~G~~-~qt~e~~~~~~~~---gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~vp~Sa~  245 (478)
T PLN03126        170 GAILVVSGADGPM-PQTKEHILLAKQV---GVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEFPGDDIPIISGSAL  245 (478)
T ss_pred             EEEEEEECCCCCc-HHHHHHHHHHHHc---CCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCCCcCcceEEEEEcc
Confidence            9999999986532 2234444444333   456 7788999998642221   122444455543     4679999999


Q ss_pred             CCCC
Q 030225          138 SAHN  141 (181)
Q Consensus       138 ~~~g  141 (181)
                      ++.+
T Consensus       246 ~g~n  249 (478)
T PLN03126        246 LALE  249 (478)
T ss_pred             cccc
Confidence            8753

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.61  E-value=2.4e-14  Score=99.84  Aligned_cols=148  Identities=18%  Similarity=0.156  Sum_probs=85.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceee---eEEEEEEEECCeEEEEEEEeCCChhhhhc-----cchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGA---AFFTQVLSLNEVTIKFDIWDTAGQERYHS-----LAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~---~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-----~~~~~~~~~d~~i~v~   72 (181)
                      +|+|||||+|+|.+.........+++.   +.....+... ....+.+||+||......     +....+.++|+++++.
T Consensus        10 ~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~-~~~~l~l~DtpG~~~~~~~~~~~l~~~~~~~~d~~l~v~   88 (197)
T cd04104          10 SGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHP-KFPNVTLWDLPGIGSTAFPPDDYLEEMKFSEYDFFIIIS   88 (197)
T ss_pred             CCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecC-CCCCceEEeCCCCCcccCCHHHHHHHhCccCcCEEEEEe
Confidence            699999999999986543322222221   1111111111 123678999999643222     1222367889999985


Q ss_pred             ECCChhHHHHH-HHHHHHHHHhCCCCceEEEEEeCCCCccccc-----------CCHHHHHHH----HHHcC---CeEEE
Q 030225           73 DITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDLEEKRK-----------VKNEEGELY----AQENG---LSFLE  133 (181)
Q Consensus        73 d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~-----------~~~~~~~~~----~~~~~---~~~~~  133 (181)
                      +.    ++... ..|++.+...   +.|+++|+||+|+....+           ...++....    ....+   .++|.
T Consensus        89 ~~----~~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~~~p~v~~  161 (197)
T cd04104          89 ST----RFSSNDVKLAKAIQCM---GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAGVSEPPVFL  161 (197)
T ss_pred             CC----CCCHHHHHHHHHHHHh---CCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEE
Confidence            42    23333 3444545443   578999999999842111           001111111    11212   36899


Q ss_pred             EecC--CCCCHHHHHHHHHHHHHhh
Q 030225          134 TSAK--SAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       134 ~Sa~--~~~gi~~~~~~l~~~~~~~  156 (181)
                      +|+.  .+.|+..+.+.++..+.+.
T Consensus       162 vS~~~~~~~~~~~l~~~~~~~l~~~  186 (197)
T cd04104         162 VSNFDPSDYDFPKLRETLLKDLPAH  186 (197)
T ss_pred             EeCCChhhcChHHHHHHHHHHhhHH
Confidence            9999  5689999999999888764

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

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.61  E-value=9.1e-15  Score=113.00  Aligned_cols=112  Identities=13%  Similarity=0.137  Sum_probs=77.1

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC--CHH
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV--KNE  118 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~--~~~  118 (181)
                      .++.|+|+||++.|.......+..+|++++|+|+.++.......+.+..+...  .-+|+++++||+|+.+....  ..+
T Consensus       117 ~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~l--gi~~iIVvlNKiDlv~~~~~~~~~~  194 (460)
T PTZ00327        117 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIM--KLKHIIILQNKIDLVKEAQAQDQYE  194 (460)
T ss_pred             ceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHc--CCCcEEEEEecccccCHHHHHHHHH
Confidence            36899999999998877777788999999999998642222223333333222  23468899999998642211  112


Q ss_pred             HHHHHHHH---cCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225          119 EGELYAQE---NGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       119 ~~~~~~~~---~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +...+.+.   .+.+++++||++|+|++.+++.|.+.+.
T Consensus       195 ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~lp  233 (460)
T PTZ00327        195 EIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQIP  233 (460)
T ss_pred             HHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhCC
Confidence            23333322   2578999999999999999999987554

>PRK00049 elongation factor Tu; Reviewed

Probab=99.61  E-value=3.2e-14  Score=108.86  Aligned_cols=148  Identities=15%  Similarity=0.123  Sum_probs=94.1

Q ss_pred             CCCchhHHHHHHhhCCCC---C-----------ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            1 MGTGKTSLVLRFVKGQFF---D-----------FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~---~-----------~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      +++|||||+++|+.....   .           .....-|.+.......+.....++.++||||+..|.......+..+|
T Consensus        21 vd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~f~~~~~~~~~~aD  100 (396)
T PRK00049         21 VDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGHADYVKNMITGAAQMD  100 (396)
T ss_pred             CCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCCeEEEEEECCCHHHHHHHHHhhhccCC
Confidence            589999999999863110   0           00012244444445555556668899999999888776667789999


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEE-EEEeCCCCcccccC---CHHHHHHHHHHc-----CCeEEEEecC
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMF-LVANKVDLEEKRKV---KNEEGELYAQEN-----GLSFLETSAK  137 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i-vi~nK~D~~~~~~~---~~~~~~~~~~~~-----~~~~~~~Sa~  137 (181)
                      ++++|+|+.++-. .....++..+...   +.|.+ +++||+|+.+..+.   ...+...+....     +++++.+||+
T Consensus       101 ~~llVVDa~~g~~-~qt~~~~~~~~~~---g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~iv~iSa~  176 (396)
T PRK00049        101 GAILVVSAADGPM-PQTREHILLARQV---GVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSAL  176 (396)
T ss_pred             EEEEEEECCCCCc-hHHHHHHHHHHHc---CCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhcCCCccCCcEEEeecc
Confidence            9999999986422 2233444444333   46765 57999998642221   122334444433     3689999999


Q ss_pred             CCC----------CHHHHHHHHHHH
Q 030225          138 SAH----------NVNELFYEIAKR  152 (181)
Q Consensus       138 ~~~----------gi~~~~~~l~~~  152 (181)
                      ++.          |+.++++.|...
T Consensus       177 ~g~~~~~~~~w~~~~~~ll~~l~~~  201 (396)
T PRK00049        177 KALEGDDDEEWEKKILELMDAVDSY  201 (396)
T ss_pred             cccCCCCcccccccHHHHHHHHHhc
Confidence            875          456666666554

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

Probab=99.60  E-value=2e-15  Score=116.04  Aligned_cols=153  Identities=22%  Similarity=0.300  Sum_probs=113.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      .|+|||||+-+|....+++...+....-.-.  ..+.-..+...|.|++....-+.....-++.+|++.+||++++++++
T Consensus        18 ~G~GKtSLImSL~~eef~~~VP~rl~~i~IP--advtPe~vpt~ivD~ss~~~~~~~l~~EirkA~vi~lvyavd~~~T~   95 (625)
T KOG1707|consen   18 EGVGKTSLIMSLLEEEFVDAVPRRLPRILIP--ADVTPENVPTSIVDTSSDSDDRLCLRKEIRKADVICLVYAVDDESTV   95 (625)
T ss_pred             CCccHHHHHHHHHhhhccccccccCCccccC--CccCcCcCceEEEecccccchhHHHHHHHhhcCEEEEEEecCChHHh
Confidence            4899999999999999987665443211111  22222334577999986655444446678999999999999999999


Q ss_pred             HHH-HHHHHHHHHhCC--CCceEEEEEeCCCCcccccCCHHH-HHHHHHHcC-C-eEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERA-KKWVQELQRQGN--PNLIMFLVANKVDLEEKRKVKNEE-GELYAQENG-L-SFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~-~~~~~~~~~~~~--~~~p~ivi~nK~D~~~~~~~~~~~-~~~~~~~~~-~-~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+ ..|+..++....  .++|+|++|||+|.........+. ...++.++. + ..++|||++-.++.++|....+++.
T Consensus        96 D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiEtciecSA~~~~n~~e~fYyaqKaVi  175 (625)
T KOG1707|consen   96 DRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIETCIECSALTLANVSELFYYAQKAVI  175 (625)
T ss_pred             hhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhHHHHHHHhhhhhhhhhhHhhhhhhhheee
Confidence            997 579999988653  689999999999997655543333 455555554 3 4799999999999999999887665


Q ss_pred             h
Q 030225          155 E  155 (181)
Q Consensus       155 ~  155 (181)
                      -
T Consensus       176 h  176 (625)
T KOG1707|consen  176 H  176 (625)
T ss_pred             c
Confidence            4

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.60  E-value=1.3e-14  Score=117.14  Aligned_cols=141  Identities=21%  Similarity=0.191  Sum_probs=86.8

Q ss_pred             CCCchhHHHHHHhhCCCCCcc------------ccc-------------------eeeeEEEEEEEECCeEEEEEEEeCC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ------------EST-------------------IGAAFFTQVLSLNEVTIKFDIWDTA   49 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~------------~~t-------------------~~~~~~~~~~~~~~~~~~~~i~D~~   49 (181)
                      +++|||||+++|+........            ..+                   -|.++......+.....++.|+|||
T Consensus        33 ~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~~~~~~~~~liDtP  112 (632)
T PRK05506         33 VDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYFATPKRKFIVADTP  112 (632)
T ss_pred             CCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEEccCCceEEEEECC
Confidence            689999999999864332110            000                   1222222233344455678899999


Q ss_pred             ChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCH----HHHHHHHH
Q 030225           50 GQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKN----EEGELYAQ  125 (181)
Q Consensus        50 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~----~~~~~~~~  125 (181)
                      |+..|.......+..+|++++|+|+.++.. ......+..+...  ..+++++++||+|+.+..+...    .+...+..
T Consensus       113 G~~~f~~~~~~~~~~aD~~llVvda~~g~~-~~t~e~~~~~~~~--~~~~iivvvNK~D~~~~~~~~~~~i~~~i~~~~~  189 (632)
T PRK05506        113 GHEQYTRNMVTGASTADLAIILVDARKGVL-TQTRRHSFIASLL--GIRHVVLAVNKMDLVDYDQEVFDEIVADYRAFAA  189 (632)
T ss_pred             ChHHHHHHHHHHHHhCCEEEEEEECCCCcc-ccCHHHHHHHHHh--CCCeEEEEEEecccccchhHHHHHHHHHHHHHHH
Confidence            998887665667889999999999975422 1122222233222  2357888999999864211111    22233344


Q ss_pred             HcC---CeEEEEecCCCCCHHH
Q 030225          126 ENG---LSFLETSAKSAHNVNE  144 (181)
Q Consensus       126 ~~~---~~~~~~Sa~~~~gi~~  144 (181)
                      ..+   .+++++||++|+|+.+
T Consensus       190 ~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        190 KLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             HcCCCCccEEEEecccCCCccc
Confidence            445   4689999999999874

>PRK12740 elongation factor G; Reviewed

Probab=99.60  E-value=2.5e-14  Score=116.29  Aligned_cols=106  Identities=18%  Similarity=0.144  Sum_probs=71.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccc----------------cceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQE----------------STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~----------------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +|+|||||+++|+.........                ..-|.++......+....+.+.+|||||+..+...+..++..
T Consensus         4 ~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~~~i~liDtPG~~~~~~~~~~~l~~   83 (668)
T PRK12740          4 SGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKGHKINLIDTPGHVDFTGEVERALRV   83 (668)
T ss_pred             CCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECCEEEEEEECCCcHHHHHHHHHHHHH
Confidence            5899999999996533211000                001223333333444456789999999998887777888999


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      +|++++|+|+++.........| ..+..   .+.|+++++||+|+.
T Consensus        84 aD~vllvvd~~~~~~~~~~~~~-~~~~~---~~~p~iiv~NK~D~~  125 (668)
T PRK12740         84 LDGAVVVVCAVGGVEPQTETVW-RQAEK---YGVPRIIFVNKMDRA  125 (668)
T ss_pred             hCeEEEEEeCCCCcCHHHHHHH-HHHHH---cCCCEEEEEECCCCC
Confidence            9999999999876554433333 33332   367999999999974

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.57  E-value=5.2e-14  Score=109.01  Aligned_cols=116  Identities=17%  Similarity=0.183  Sum_probs=76.8

Q ss_pred             eeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH---H---HHHHHHHHHHHHhCCCCce
Q 030225           26 GAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS---F---ERAKKWVQELQRQGNPNLI   99 (181)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~---~~~~~~~~~~~~~~~~~~p   99 (181)
                      |.+.......+......+.|+|+||+.+|.......+..+|++++|+|++.+.-   +   ....+.+..+...   ++|
T Consensus        70 GiTid~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~---gi~  146 (446)
T PTZ00141         70 GITIDIALWKFETPKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTL---GVK  146 (446)
T ss_pred             CEeEEeeeEEEccCCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHc---CCC
Confidence            344444455566677889999999999998888888899999999999986420   1   2333444444333   444


Q ss_pred             -EEEEEeCCCCc--ccc----cCCHHHHHHHHHHcC-----CeEEEEecCCCCCHHH
Q 030225          100 -MFLVANKVDLE--EKR----KVKNEEGELYAQENG-----LSFLETSAKSAHNVNE  144 (181)
Q Consensus       100 -~ivi~nK~D~~--~~~----~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~gi~~  144 (181)
                       +++++||+|..  +..    +....+...+....+     ++++.+|+.+|+|+.+
T Consensus       147 ~iiv~vNKmD~~~~~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        147 QMIVCINKMDDKTVNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             eEEEEEEccccccchhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence             67899999942  211    111233334444333     5789999999999864

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.57  E-value=1.2e-14  Score=110.01  Aligned_cols=157  Identities=18%  Similarity=0.149  Sum_probs=105.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhh-hc--------cchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY-HS--------LAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-~~--------~~~~~~~~~d~~i~v   71 (181)
                      ||||||||+|.|....... ..|..|+++...+..++-..+++.+.||+|-.+. ..        .....+..+|++++|
T Consensus       277 PNvGKSSLlNaL~~~drsI-VSpv~GTTRDaiea~v~~~G~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~~~~advi~~v  355 (531)
T KOG1191|consen  277 PNVGKSSLLNALSREDRSI-VSPVPGTTRDAIEAQVTVNGVPVRLSDTAGIREESNDGIEALGIERARKRIERADVILLV  355 (531)
T ss_pred             CCCCHHHHHHHHhcCCceE-eCCCCCcchhhheeEeecCCeEEEEEeccccccccCChhHHHhHHHHHHHHhhcCEEEEE
Confidence            8999999999999887655 3477788888888777777788899999996541 11        123457889999999


Q ss_pred             EEC--CChhHHHHHHHHHHHHHHh------CCCCceEEEEEeCCCCccc-ccCCHHHHHHHHHHcC---Ce-EEEEecCC
Q 030225           72 YDI--TSMDSFERAKKWVQELQRQ------GNPNLIMFLVANKVDLEEK-RKVKNEEGELYAQENG---LS-FLETSAKS  138 (181)
Q Consensus        72 ~d~--~~~~s~~~~~~~~~~~~~~------~~~~~p~ivi~nK~D~~~~-~~~~~~~~~~~~~~~~---~~-~~~~Sa~~  138 (181)
                      +|+  ++-++-..+.+.+.....-      .....|++++.||+|+... .+... ....+....+   .+ ..++|+++
T Consensus       356 vda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~-~~~~~~~~~~~~~~~i~~~vs~~t  434 (531)
T KOG1191|consen  356 VDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTK-IPVVYPSAEGRSVFPIVVEVSCTT  434 (531)
T ss_pred             ecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccC-CceeccccccCcccceEEEeeech
Confidence            999  3333333333333332221      1234789999999998653 22211 1112222222   33 45699999


Q ss_pred             CCCHHHHHHHHHHHHHhhCCC
Q 030225          139 AHNVNELFYEIAKRLAEVNPS  159 (181)
Q Consensus       139 ~~gi~~~~~~l~~~~~~~~~~  159 (181)
                      ++|++.+.+.|.+.+...-.+
T Consensus       435 keg~~~L~~all~~~~~~~~~  455 (531)
T KOG1191|consen  435 KEGCERLSTALLNIVERLVVS  455 (531)
T ss_pred             hhhHHHHHHHHHHHHHHhhcC
Confidence            999999999999988876553

>PLN03127 Elongation factor Tu; Provisional

Probab=99.56  E-value=9e-14  Score=107.57  Aligned_cols=147  Identities=14%  Similarity=0.135  Sum_probs=91.1

Q ss_pred             CCCchhHHHHHHhhC------CC----------CCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKG------QF----------FDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~------~~----------~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +++|||||+++|.+.      ..          .++.  .-|+++......++....++.++||||+..|.......+..
T Consensus        70 vd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~--~rGiTi~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~g~~~  147 (447)
T PLN03127         70 VDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEK--ARGITIATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQ  147 (447)
T ss_pred             CCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHh--hcCceeeeeEEEEcCCCeEEEEEECCCccchHHHHHHHHhh
Confidence            479999999999732      10          0111  12444445555666666788999999998876665566678


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCce-EEEEEeCCCCcccccCCH---HHHHHHHHHc-----CCeEEEEe
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRKVKN---EEGELYAQEN-----GLSFLETS  135 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivi~nK~D~~~~~~~~~---~~~~~~~~~~-----~~~~~~~S  135 (181)
                      +|++++|+|+.++.. ......+..+...   +.| +++++||+|+.+..+...   .+...+....     .++++.+|
T Consensus       148 aD~allVVda~~g~~-~qt~e~l~~~~~~---gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l~~~~~~~~~vpiip~S  223 (447)
T PLN03127        148 MDGGILVVSAPDGPM-PQTKEHILLARQV---GVPSLVVFLNKVDVVDDEELLELVEMELRELLSFYKFPGDEIPIIRGS  223 (447)
T ss_pred             CCEEEEEEECCCCCc-hhHHHHHHHHHHc---CCCeEEEEEEeeccCCHHHHHHHHHHHHHHHHHHhCCCCCcceEEEec
Confidence            999999999876422 2223344444333   567 567899999864222111   1222333322     36788888


Q ss_pred             cC---CCCC-------HHHHHHHHHHHH
Q 030225          136 AK---SAHN-------VNELFYEIAKRL  153 (181)
Q Consensus       136 a~---~~~g-------i~~~~~~l~~~~  153 (181)
                      |.   ++.|       +.++++.|.+.+
T Consensus       224 a~sa~~g~n~~~~~~~i~~Ll~~l~~~l  251 (447)
T PLN03127        224 ALSALQGTNDEIGKNAILKLMDAVDEYI  251 (447)
T ss_pred             cceeecCCCcccccchHHHHHHHHHHhC
Confidence            76   4555       677777776654

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.56  E-value=2.4e-14  Score=102.78  Aligned_cols=96  Identities=22%  Similarity=0.339  Sum_probs=78.2

Q ss_pred             hhhhccchhhccCCcEEEEEEECCChh-HHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCe
Q 030225           52 ERYHSLAPMYYRGAAAAVVVYDITSMD-SFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLS  130 (181)
Q Consensus        52 ~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~  130 (181)
                      +++..+.+.+++++|++++|||++++. ++..+.+|+..+..   .++|+++++||+||.+..++..+....+ ...+.+
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---QNIEPIIVLNKIDLLDDEDMEKEQLDIY-RNIGYQ   99 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccCCCHHHHHHHHHHH-HHCCCe
Confidence            557778888999999999999999887 89999999986643   4789999999999965444333344444 357899


Q ss_pred             EEEEecCCCCCHHHHHHHHHH
Q 030225          131 FLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus       131 ~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      ++++||++++|++++|+.+..
T Consensus       100 v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157       100 VLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             EEEEecCCchhHHHHHhhhcC
Confidence            999999999999999998864

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

>PRK12739 elongation factor G; Reviewed

Probab=99.55  E-value=1.1e-13  Score=112.74  Aligned_cols=106  Identities=17%  Similarity=0.117  Sum_probs=71.0

Q ss_pred             CCCchhHHHHHHhhCCCCCcc----c------------cceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ----E------------STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~----~------------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +++|||||+++|+........    .            ..-|+++......+...+.++.++||||+..|...+...+..
T Consensus        17 ~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~~f~~e~~~al~~   96 (691)
T PRK12739         17 IDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKGHRINIIDTPGHVDFTIEVERSLRV   96 (691)
T ss_pred             CCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECCEEEEEEcCCCHHHHHHHHHHHHHH
Confidence            589999999999753211000    0            011233333333344456688999999999888888889999


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      +|++++|+|+.++-.... ...+..+..   .++|.++++||+|+.
T Consensus        97 ~D~~ilVvDa~~g~~~qt-~~i~~~~~~---~~~p~iv~iNK~D~~  138 (691)
T PRK12739         97 LDGAVAVFDAVSGVEPQS-ETVWRQADK---YGVPRIVFVNKMDRI  138 (691)
T ss_pred             hCeEEEEEeCCCCCCHHH-HHHHHHHHH---cCCCEEEEEECCCCC
Confidence            999999999987533222 233333333   357899999999975

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.53  E-value=3.6e-13  Score=93.87  Aligned_cols=153  Identities=14%  Similarity=0.127  Sum_probs=89.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeE--EEEEEEECCeEEEEEEEeCCChhhhhc--------c---chhhccCCcE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHS--------L---APMYYRGAAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~--~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~---~~~~~~~~d~   67 (181)
                      ||||||||+|++++...........+.+.  ........  ..++.++||||-.....        +   ......+.|+
T Consensus         9 ~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~--~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~~~   86 (196)
T cd01852           9 TGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWD--GRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGPHA   86 (196)
T ss_pred             CCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEEC--CeEEEEEECcCCCCccCChHHHHHHHHHHHHhcCCCCEE
Confidence            79999999999998765433211112222  22222333  34788999999533211        1   1122467899


Q ss_pred             EEEEEECCChhHHHHHHHHHHHHHHhCC--CCceEEEEEeCCCCcccccC------CHHHHHHHHHHcCCeEEEEe----
Q 030225           68 AVVVYDITSMDSFERAKKWVQELQRQGN--PNLIMFLVANKVDLEEKRKV------KNEEGELYAQENGLSFLETS----  135 (181)
Q Consensus        68 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~ivi~nK~D~~~~~~~------~~~~~~~~~~~~~~~~~~~S----  135 (181)
                      +++|+++.+. +- .-...++.+.....  .-.++++++|+.|......+      .........+..+-.++..+    
T Consensus        87 illVi~~~~~-t~-~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~c~~r~~~f~~~~~  164 (196)
T cd01852          87 FLLVVPLGRF-TE-EEEQAVETLQELFGEKVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEKCGGRYVAFNNKAK  164 (196)
T ss_pred             EEEEEECCCc-CH-HHHHHHHHHHHHhChHhHhcEEEEEECccccCCCcHHHHHHhccHHHHHHHHHhCCeEEEEeCCCC
Confidence            9999998762 21 11223333333221  12478889999996432211      11334555555565565554    


Q ss_pred             -cCCCCCHHHHHHHHHHHHHhhC
Q 030225          136 -AKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       136 -a~~~~gi~~~~~~l~~~~~~~~  157 (181)
                       +..+.++.++++.+.+.+.++.
T Consensus       165 ~~~~~~q~~~Ll~~i~~~~~~~~  187 (196)
T cd01852         165 GEEQEQQVKELLAKVESMVKENG  187 (196)
T ss_pred             cchhHHHHHHHHHHHHHHHHhcC
Confidence             4567889999999999888743

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).

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.52  E-value=1.5e-13  Score=111.93  Aligned_cols=107  Identities=17%  Similarity=0.081  Sum_probs=73.9

Q ss_pred             CCCchhHHHHHHhhCCCCCc----cc------------cceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFDF----QE------------STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~----~~------------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +|+|||||+++|+.......    ..            ..-|+++......+...+.++.+|||||+..+...+...++.
T Consensus        19 ~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~~~i~liDTPG~~~~~~~~~~~l~~   98 (689)
T TIGR00484        19 IDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGHVDFTVEVERSLRV   98 (689)
T ss_pred             CCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECCeEEEEEECCCCcchhHHHHHHHHH
Confidence            68999999999975322110    00            012344444444455556789999999998888788889999


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      +|++++|+|+++....... .++..+..   .+.|.++++||+|+.+
T Consensus        99 ~D~~ilVvda~~g~~~~~~-~~~~~~~~---~~~p~ivviNK~D~~~  141 (689)
T TIGR00484        99 LDGAVAVLDAVGGVQPQSE-TVWRQANR---YEVPRIAFVNKMDKTG  141 (689)
T ss_pred             hCEEEEEEeCCCCCChhHH-HHHHHHHH---cCCCEEEEEECCCCCC
Confidence            9999999999875443322 33333333   3578999999999864

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.

>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=99.52  E-value=1.2e-14  Score=98.68  Aligned_cols=108  Identities=20%  Similarity=0.296  Sum_probs=64.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEE-CCeEEEEEEEeCCChhhhhccc-hh--hccCCcEEEEEEECCC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSL-NEVTIKFDIWDTAGQERYHSLA-PM--YYRGAAAAVVVYDITS   76 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~-~~--~~~~~d~~i~v~d~~~   76 (181)
                      +|||||+|+.+|..+...+++.+. ....   ...+ ....-.+.++|+|||.+.+... ..  +..++.++|||+|.+.
T Consensus        12 s~SGKTaLf~~L~~~~~~~T~tS~-e~n~---~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~IIfvvDSs~   87 (181)
T PF09439_consen   12 SGSGKTALFSQLVNGKTVPTVTSM-ENNI---AYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGIIFVVDSST   87 (181)
T ss_dssp             TTSSHHHHHHHHHHSS---B---S-SEEE---ECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEEEEEEETTT
T ss_pred             CCCCHHHHHHHHhcCCcCCeeccc-cCCc---eEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEEEEEEeCcc
Confidence            689999999999999765554333 2111   1112 1223367899999998766533 32  4788999999999874


Q ss_pred             -hhHHHHHHHHHHHHHH---hCCCCceEEEEEeCCCCccc
Q 030225           77 -MDSFERAKKWVQELQR---QGNPNLIMFLVANKVDLEEK  112 (181)
Q Consensus        77 -~~s~~~~~~~~~~~~~---~~~~~~p~ivi~nK~D~~~~  112 (181)
                       ...+.++-.++-.+..   .....+|++|+.||.|+...
T Consensus        88 ~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A  127 (181)
T PF09439_consen   88 DQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTA  127 (181)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT-
T ss_pred             chhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcccccc
Confidence             3445554444444333   22468899999999998653

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.51  E-value=8.3e-13  Score=95.58  Aligned_cols=146  Identities=18%  Similarity=0.117  Sum_probs=94.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh-------ccchhhccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH-------SLAPMYYRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~~~~~~~d~~i~v~d   73 (181)
                      |+|||||||++|.+.......-+.++.+...-.  +++...++++.|+||--.-.       ...-...++||++++|+|
T Consensus        72 PsvGKStLL~~LTnt~seva~y~FTTl~~VPG~--l~Y~ga~IQild~Pgii~gas~g~grG~~vlsv~R~ADlIiiVld  149 (365)
T COG1163          72 PSVGKSTLLNKLTNTKSEVADYPFTTLEPVPGM--LEYKGAQIQLLDLPGIIEGASSGRGRGRQVLSVARNADLIIIVLD  149 (365)
T ss_pred             CCccHHHHHHHHhCCCccccccCceecccccce--EeecCceEEEEcCcccccCcccCCCCcceeeeeeccCCEEEEEEe
Confidence            899999999999986553322233333322333  34455678899999842211       123456789999999999


Q ss_pred             CCChhH-HHHHHHHHHHH-----------------------------------------HHhC-----------------
Q 030225           74 ITSMDS-FERAKKWVQEL-----------------------------------------QRQG-----------------   94 (181)
Q Consensus        74 ~~~~~s-~~~~~~~~~~~-----------------------------------------~~~~-----------------   94 (181)
                      +....+ .+-+.+.+...                                         .++.                 
T Consensus       150 ~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA~V~Ir~dvTlDd~  229 (365)
T COG1163         150 VFEDPHHRDIIERELEDVGIRLNKRPPDVTIKKKESGGIRINGTGPLTHLDEDTVRAILREYRIHNADVLIREDVTLDDL  229 (365)
T ss_pred             cCCChhHHHHHHHHHHhcCeEecCCCCceEEEEeccCCEEEecccccccCCHHHHHHHHHHhCcccceEEEecCCcHHHH
Confidence            986544 44444433331                                         0000                 


Q ss_pred             -------CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           95 -------NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        95 -------~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                             ---+|.+++.||.|+..     .++...+.+..  .++.+||..+.|++++.+.|-+.+.-
T Consensus       230 id~l~~nrvY~p~l~v~NKiD~~~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L~l  290 (365)
T COG1163         230 IDALEGNRVYKPALYVVNKIDLPG-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVLGL  290 (365)
T ss_pred             HHHHhhcceeeeeEEEEecccccC-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhhCe
Confidence                   00389999999999854     33344443322  88999999999999999999886543

>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=99.48  E-value=1.3e-12  Score=83.43  Aligned_cols=99  Identities=17%  Similarity=0.109  Sum_probs=59.9

Q ss_pred             CCCchhHHHHHHhhCCCCC-ccccceeeeEEEEEEEECCeEEEEEEEeCCChhh---------hhccchhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFD-FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER---------YHSLAPMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~~~~d~~i~   70 (181)
                      ||+|||||+|+|++..... ...+..+.......+..++..+  .++|+||-..         ........+..+|++++
T Consensus         8 ~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~~~~--~~vDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~ii~   85 (116)
T PF01926_consen    8 PNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNNKKF--ILVDTPGINDGESQDNDGKEIRKFLEQISKSDLIIY   85 (116)
T ss_dssp             TTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETTEEE--EEEESSSCSSSSHHHHHHHHHHHHHHHHCTESEEEE
T ss_pred             CCCCHHHHHHHHhccccccccccccceeeeeeeeeeeceeeE--EEEeCCCCcccchhhHHHHHHHHHHHHHHHCCEEEE
Confidence            7999999999999854321 1112222222223444566554  6999999521         11112233488999999


Q ss_pred             EEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeC
Q 030225           71 VYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANK  106 (181)
Q Consensus        71 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK  106 (181)
                      |+|++++.. +.....++.+.    .++|+++|+||
T Consensus        86 vv~~~~~~~-~~~~~~~~~l~----~~~~~i~v~NK  116 (116)
T PF01926_consen   86 VVDASNPIT-EDDKNILRELK----NKKPIILVLNK  116 (116)
T ss_dssp             EEETTSHSH-HHHHHHHHHHH----TTSEEEEEEES
T ss_pred             EEECCCCCC-HHHHHHHHHHh----cCCCEEEEEcC
Confidence            999877322 22233334442    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 ....

>PRK00007 elongation factor G; Reviewed

Probab=99.48  E-value=9.3e-13  Score=107.31  Aligned_cols=106  Identities=16%  Similarity=0.127  Sum_probs=70.1

Q ss_pred             CCCchhHHHHHHhhCCCCCcc----c------------cceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ----E------------STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~----~------------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +|+|||||+++|+........    .            ..-|+++......+.....++.++||||+..|.......+..
T Consensus        19 ~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~~~~~liDTPG~~~f~~ev~~al~~   98 (693)
T PRK00007         19 IDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKDHRINIIDTPGHVDFTIEVERSLRV   98 (693)
T ss_pred             CCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECCeEEEEEeCCCcHHHHHHHHHHHHH
Confidence            689999999999742211000    0            112333434344444456689999999998887767777889


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      +|++++|+|+...-.... ...+..+..   .+.|.++++||+|+.
T Consensus        99 ~D~~vlVvda~~g~~~qt-~~~~~~~~~---~~~p~iv~vNK~D~~  140 (693)
T PRK00007         99 LDGAVAVFDAVGGVEPQS-ETVWRQADK---YKVPRIAFVNKMDRT  140 (693)
T ss_pred             cCEEEEEEECCCCcchhh-HHHHHHHHH---cCCCEEEEEECCCCC
Confidence            999999999886533222 233333433   357889999999974

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.48  E-value=9.1e-13  Score=100.45  Aligned_cols=57  Identities=19%  Similarity=0.144  Sum_probs=38.9

Q ss_pred             CceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHH-HHHHHHHHHHhhC
Q 030225           97 NLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNE-LFYEIAKRLAEVN  157 (181)
Q Consensus        97 ~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~-~~~~l~~~~~~~~  157 (181)
                      .+|+++++||.|+.....    ....+....+..++.+||..+.++.+ +++.+++.+....
T Consensus       217 ~KPvI~VlNK~D~~~~~~----~l~~i~~~~~~~vvpISA~~e~~l~~~l~~~i~~~lp~~p  274 (396)
T PRK09602        217 SKPMVIAANKADLPPAEE----NIERLKEEKYYIVVPTSAEAELALRRAAKAGLIDYIPGDS  274 (396)
T ss_pred             CCCEEEEEEchhcccchH----HHHHHHhcCCCcEEEEcchhhhhHHHHHHHhHHhhCCCCC
Confidence            489999999999643111    12222222345689999999999999 7777777665543

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.47  E-value=3.2e-13  Score=101.84  Aligned_cols=149  Identities=17%  Similarity=0.174  Sum_probs=103.6

Q ss_pred             CchhHHHHHHhhCCCCCccc--------------cceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEE
Q 030225            3 TGKTSLVLRFVKGQFFDFQE--------------STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAA   68 (181)
Q Consensus         3 ~GKttLl~~l~~~~~~~~~~--------------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   68 (181)
                      =|||||+..|+.+...-...              .--|+++-.+...+.+..++++|+|||||..|-......++-.|++
T Consensus        16 HGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGGEVERvl~MVDgv   95 (603)
T COG1217          16 HGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGGEVERVLSMVDGV   95 (603)
T ss_pred             CCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccchhhhhhhhcceE
Confidence            39999999999754421111              1236666677777777889999999999999999999999999999


Q ss_pred             EEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC-CHHHHHHHHHH-------cCCeEEEEecCCC-
Q 030225           69 VVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV-KNEEGELYAQE-------NGLSFLETSAKSA-  139 (181)
Q Consensus        69 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~-~~~~~~~~~~~-------~~~~~~~~Sa~~~-  139 (181)
                      ++++|+.+. .+...+-.++.....   +.+.++++||+|..+.+.. ..++...+..+       +++|+++.|++.| 
T Consensus        96 lLlVDA~EG-pMPQTrFVlkKAl~~---gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQLdFPivYAS~~~G~  171 (603)
T COG1217          96 LLLVDASEG-PMPQTRFVLKKALAL---GLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQLDFPIVYASARNGT  171 (603)
T ss_pred             EEEEEcccC-CCCchhhhHHHHHHc---CCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhCCCcEEEeeccCce
Confidence            999999863 233334444444443   5567778899998664431 11222333222       4579999999887 


Q ss_pred             ---------CCHHHHHHHHHHHHHh
Q 030225          140 ---------HNVNELFYEIAKRLAE  155 (181)
Q Consensus       140 ---------~gi~~~~~~l~~~~~~  155 (181)
                               .++.-+|+.|++.+..
T Consensus       172 a~~~~~~~~~~m~pLfe~I~~hvp~  196 (603)
T COG1217         172 ASLDPEDEADDMAPLFETILDHVPA  196 (603)
T ss_pred             eccCccccccchhHHHHHHHHhCCC
Confidence                     3677888888776544

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.45  E-value=6.7e-13  Score=98.91  Aligned_cols=118  Identities=18%  Similarity=0.166  Sum_probs=79.2

Q ss_pred             eeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH---H--H-HHHHHHHHHHHhCCCCce
Q 030225           26 GAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS---F--E-RAKKWVQELQRQGNPNLI   99 (181)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~--~-~~~~~~~~~~~~~~~~~p   99 (181)
                      |.++......+....+.|.|+|+||+..|-...-.-+.+||+.|+|+|+.+.+.   |  . ..+......+..  .-..
T Consensus        70 GvTi~~~~~~fet~k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tl--Gi~~  147 (428)
T COG5256          70 GVTIDVAHSKFETDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTL--GIKQ  147 (428)
T ss_pred             ceEEEEEEEEeecCCceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhc--CCce
Confidence            455555556666677789999999999988887778889999999999987631   1  1 122222222222  2335


Q ss_pred             EEEEEeCCCCcccccCCHHH----HHHHHHHcC-----CeEEEEecCCCCCHHHH
Q 030225          100 MFLVANKVDLEEKRKVKNEE----GELYAQENG-----LSFLETSAKSAHNVNEL  145 (181)
Q Consensus       100 ~ivi~nK~D~~~~~~~~~~~----~~~~~~~~~-----~~~~~~Sa~~~~gi~~~  145 (181)
                      .++++||+|+.+.++...++    ...+.+..|     ++++.+|+..|+|+.+.
T Consensus       148 lIVavNKMD~v~wde~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~~  202 (428)
T COG5256         148 LIVAVNKMDLVSWDEERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTKK  202 (428)
T ss_pred             EEEEEEcccccccCHHHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCccccc
Confidence            77779999997644333333    233444444     56999999999987653

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=99.44  E-value=2.5e-12  Score=93.18  Aligned_cols=152  Identities=16%  Similarity=0.256  Sum_probs=109.8

Q ss_pred             CCchhHHHHHHhhCCCCCccccceeeeEEEEE--EEECCeEEEEEEEeCCChhhhhccchhhccCC----cEEEEEEECC
Q 030225            2 GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQV--LSLNEVTIKFDIWDTAGQERYHSLAPMYYRGA----AAAVVVYDIT   75 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~--~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~----d~~i~v~d~~   75 (181)
                      |+|||||+.+|-+..   +..+.-|..|....  -...+...++.+|-..|......+.+..+...    .++|++.|.+
T Consensus        62 ~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~ats~aetlviltasms  138 (473)
T KOG3905|consen   62 GSGKTSLISKLQGSE---TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALPATSLAETLVILTASMS  138 (473)
T ss_pred             CCchhHHHHHhhccc---ccCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcccccCccceEEEEEEecC
Confidence            799999999998766   23344444443333  33445567889999988776666655555433    4889999999


Q ss_pred             ChhH-HHHHHHHHHHHHHhCC-----------------------------------------------------------
Q 030225           76 SMDS-FERAKKWVQELQRQGN-----------------------------------------------------------   95 (181)
Q Consensus        76 ~~~s-~~~~~~~~~~~~~~~~-----------------------------------------------------------   95 (181)
                      ++.. ++.+++|...+.++..                                                           
T Consensus       139 ~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~~~~de~~llPL~~dtLt  218 (473)
T KOG3905|consen  139 NPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVGSSADEHVLLPLGQDTLT  218 (473)
T ss_pred             CcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccccCccccccccccCCcchh
Confidence            9955 6668888877655410                                                           


Q ss_pred             --CCceEEEEEeCCCCcc----cc-------cCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           96 --PNLIMFLVANKVDLEE----KR-------KVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        96 --~~~p~ivi~nK~D~~~----~~-------~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                        -++|+++|.+|+|...    ..       .......+.||..+|..++++|++...|++-+..+|++..+..
T Consensus       219 ~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYivhr~yG~  292 (473)
T KOG3905|consen  219 HNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYIVHRSYGF  292 (473)
T ss_pred             hcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHHHHHhcCc
Confidence              0589999999999732    11       1222346678888999999999999999999999999988764

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.44  E-value=2.6e-12  Score=87.76  Aligned_cols=146  Identities=19%  Similarity=0.252  Sum_probs=88.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhcc---CCcEEEEEEECCC-
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR---GAAAAVVVYDITS-   76 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~---~~d~~i~v~d~~~-   76 (181)
                      ++||||+|+-+|..+....++.+     .......+..+.-.+.++|.|||.+.+.-...++.   .+-+++||+|..- 
T Consensus        47 ~dSGKT~LF~qL~~gs~~~TvtS-----iepn~a~~r~gs~~~~LVD~PGH~rlR~kl~e~~~~~~~akaiVFVVDSa~f  121 (238)
T KOG0090|consen   47 SDSGKTSLFTQLITGSHRGTVTS-----IEPNEATYRLGSENVTLVDLPGHSRLRRKLLEYLKHNYSAKAIVFVVDSATF  121 (238)
T ss_pred             CCCCceeeeeehhcCCccCeeee-----eccceeeEeecCcceEEEeCCCcHHHHHHHHHHccccccceeEEEEEecccc
Confidence            58999999999998865443311     11222222222223679999999877665555555   7899999999763 


Q ss_pred             hhHHHHHHHHHHH-HHHh--CCCCceEEEEEeCCCCccccc------CCHHHHHH-------------------------
Q 030225           77 MDSFERAKKWVQE-LQRQ--GNPNLIMFLVANKVDLEEKRK------VKNEEGEL-------------------------  122 (181)
Q Consensus        77 ~~s~~~~~~~~~~-~~~~--~~~~~p~ivi~nK~D~~~~~~------~~~~~~~~-------------------------  122 (181)
                      .....++-.++-. +...  ....+|++++.||.|+.....      ..+.+...                         
T Consensus       122 ~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt~~~Ir~~LEkEi~~lr~sRsa~~~~~~ed~~~~~tlg~~  201 (238)
T KOG0090|consen  122 LKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKTAEKIRQQLEKEIHKLRESRSALRSISDEDIAKDFTLGKE  201 (238)
T ss_pred             chhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCcHHHHHHHHHHHHHHHHHHHhhhhcccccccccccccccc
Confidence            2223333333333 3333  246788999999999843211      11111111                         


Q ss_pred             -----HH--HHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225          123 -----YA--QENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus       123 -----~~--~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                           |.  .+..+.+.++|++++ +++++-+|+.+.
T Consensus       202 g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~~~  237 (238)
T KOG0090|consen  202 GEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIREA  237 (238)
T ss_pred             ccccchhhcccceeEEeecccCcC-ChHHHHHHHHHh
Confidence                 00  012346788899988 899999999764

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.42  E-value=7.2e-13  Score=94.01  Aligned_cols=152  Identities=16%  Similarity=0.230  Sum_probs=96.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEE-EECCeEEEEEEEeCCChh-------hhhccchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVL-SLNEVTIKFDIWDTAGQE-------RYHSLAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~~~~i~D~~G~~-------~~~~~~~~~~~~~d~~i~v~   72 (181)
                      .|+|||||+|+|+.+...+...-..+.+...+.. .+++.  .+.+||+||-.       +++.....++...|+++++.
T Consensus        48 TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~~--~l~lwDtPG~gdg~~~D~~~r~~~~d~l~~~DLvL~l~  125 (296)
T COG3596          48 TGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDGE--NLVLWDTPGLGDGKDKDAEHRQLYRDYLPKLDLVLWLI  125 (296)
T ss_pred             CCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhcccc--ceEEecCCCcccchhhhHHHHHHHHHHhhhccEEEEec
Confidence            4899999999999766654433233333222222 22332  57899999953       36677788899999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccc-------ccCCHHHHHHHHHH--------c--CCeEEEEe
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEK-------RKVKNEEGELYAQE--------N--GLSFLETS  135 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~-------~~~~~~~~~~~~~~--------~--~~~~~~~S  135 (181)
                      +..|+.--.. ..+++.+.... .+.++++++|.+|....       ...+.....++..+        .  --|++.++
T Consensus       126 ~~~draL~~d-~~f~~dVi~~~-~~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~~k~~~~~~~~q~V~pV~~~~  203 (296)
T COG3596         126 KADDRALGTD-EDFLRDVIILG-LDKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEEKAEALGRLFQEVKPVVAVS  203 (296)
T ss_pred             cCCCccccCC-HHHHHHHHHhc-cCceeEEEEehhhhhccccccccccCCCCHHHHHHHHHHHHHHHHHHhhcCCeEEec
Confidence            9987642111 23334443432 34789999999997431       01111111111111        1  13778888


Q ss_pred             cCCCCCHHHHHHHHHHHHHhh
Q 030225          136 AKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       136 a~~~~gi~~~~~~l~~~~~~~  156 (181)
                      .+.+-|++++...++..+...
T Consensus       204 ~r~~wgl~~l~~ali~~lp~e  224 (296)
T COG3596         204 GRLPWGLKELVRALITALPVE  224 (296)
T ss_pred             cccCccHHHHHHHHHHhCccc
Confidence            899999999999999987643

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.41  E-value=8e-12  Score=96.70  Aligned_cols=155  Identities=20%  Similarity=0.282  Sum_probs=109.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEEC--CeEEEEEEEeCCChhhhhccchhhccC----CcEEEEEEEC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN--EVTIKFDIWDTAGQERYHSLAPMYYRG----AAAAVVVYDI   74 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~----~d~~i~v~d~   74 (181)
                      .++||||||.+|.+..   ...++.+.+|....+..+  +...++.+|-..|...+..+.+..+..    --++|+|.|.
T Consensus        34 ~~~GKttli~~L~~~e---~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~~t~vvIvlDl  110 (472)
T PF05783_consen   34 KGSGKTTLIARLQGIE---DPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLPNTLVVIVLDL  110 (472)
T ss_pred             CCCchHHHHHHhhccC---CCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccccceEEEEEecC
Confidence            4799999999987643   345677766655544332  234678999998877777766655543    2488999999


Q ss_pred             CChhH-HHHHHHHHHHHHHhC-----------------------------------------------------------
Q 030225           75 TSMDS-FERAKKWVQELQRQG-----------------------------------------------------------   94 (181)
Q Consensus        75 ~~~~s-~~~~~~~~~~~~~~~-----------------------------------------------------------   94 (181)
                      +.|.. ++.++.|+..+.++.                                                           
T Consensus       111 S~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~~~~~lpl~~g~  190 (472)
T PF05783_consen  111 SKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDDESVLLPLGEGV  190 (472)
T ss_pred             CChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCcccccccccccccccccCCCCCcc
Confidence            99876 445677765543320                                                           


Q ss_pred             ---CCCceEEEEEeCCCCccc----c-------cCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           95 ---NPNLIMFLVANKVDLEEK----R-------KVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        95 ---~~~~p~ivi~nK~D~~~~----~-------~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                         ..++|++||.+|+|....    .       +....-.+.+|..+|+.++++|++...+++.++.+|.+.+....-
T Consensus       191 l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~h~l~~~~f  268 (472)
T PF05783_consen  191 LTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYILHRLYGFPF  268 (472)
T ss_pred             cccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHHHHhccCCC
Confidence               003799999999997421    1       122233567888899999999999999999999999998877543

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 [].

>cd00066 G-alpha G protein alpha subunit

Probab=99.40  E-value=8.8e-12  Score=92.83  Aligned_cols=122  Identities=17%  Similarity=0.223  Sum_probs=92.0

Q ss_pred             ECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCCh----------hHHHHHHHHHHHHHHhC-CCCceEEEEE
Q 030225           36 LNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSM----------DSFERAKKWVQELQRQG-NPNLIMFLVA  104 (181)
Q Consensus        36 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~~~~~~-~~~~p~ivi~  104 (181)
                      +....+.+.+||++|+...+..|..++.+++++|||+|+++-          ..+.+....+..+.... ..++|+++++
T Consensus       156 f~~~~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~  235 (317)
T cd00066         156 FTIKNLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFL  235 (317)
T ss_pred             EEecceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEc
Confidence            344567889999999999999999999999999999999974          45666666666665542 2679999999


Q ss_pred             eCCCCcc----------------cccCCHHHHHHHHHH----------cCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225          105 NKVDLEE----------------KRKVKNEEGELYAQE----------NGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       105 nK~D~~~----------------~~~~~~~~~~~~~~~----------~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ||.|+-.                ......+.+..|...          +.+..+.++|.+..+++.+|+.+.+.+.+..
T Consensus       236 NK~D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~~~~  314 (317)
T cd00066         236 NKKDLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIILQNN  314 (317)
T ss_pred             cChHHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHHHHH
Confidence            9999622                112344555554443          2245678899999999999999999887754

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.

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

Probab=99.40  E-value=1.4e-12  Score=81.70  Aligned_cols=129  Identities=23%  Similarity=0.192  Sum_probs=88.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhcc----chhhccCCcEEEEEEECCC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSL----APMYYRGAAAAVVVYDITS   76 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~----~~~~~~~~d~~i~v~d~~~   76 (181)
                      .|+|||||.++|.+...  .+..|..+++       +..    ..+|+||.--.+..    ......++|++++|-.+++
T Consensus        10 ~gcGKTtL~q~L~G~~~--lykKTQAve~-------~d~----~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~~v~~and   76 (148)
T COG4917          10 VGCGKTTLFQSLYGNDT--LYKKTQAVEF-------NDK----GDIDTPGEYFEHPRWYHALITTLQDADVIIYVHAAND   76 (148)
T ss_pred             cccCchhHHHHhhcchh--hhcccceeec-------cCc----cccCCchhhhhhhHHHHHHHHHhhccceeeeeecccC
Confidence            48999999999987654  3334444322       111    16899995322222    2334678999999999999


Q ss_pred             hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHHH
Q 030225           77 MDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        77 ~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +++.-     -..+...  ..+|+|-+++|.|+.+..+  .....++..+-|. ++|++|+.++.|++++++.|..
T Consensus        77 ~~s~f-----~p~f~~~--~~k~vIgvVTK~DLaed~d--I~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~~L~~  143 (148)
T COG4917          77 PESRF-----PPGFLDI--GVKKVIGVVTKADLAEDAD--ISLVKRWLREAGAEPIFETSAVDNQGVEELVDYLAS  143 (148)
T ss_pred             ccccC-----Ccccccc--cccceEEEEecccccchHh--HHHHHHHHHHcCCcceEEEeccCcccHHHHHHHHHh
Confidence            86521     1112222  3456888899999975333  3456778888885 6999999999999999999865

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

Probab=99.39  E-value=8.9e-12  Score=96.30  Aligned_cols=152  Identities=19%  Similarity=0.234  Sum_probs=114.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      .++|||.|++.+++..+...+..+....+....+...+....+.+-|++-. ....+...- ..||+++++||.+++.+|
T Consensus       434 k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~~cDv~~~~YDsS~p~sf  511 (625)
T KOG1707|consen  434 KNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-AACDVACLVYDSSNPRSF  511 (625)
T ss_pred             CcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc-ceeeeEEEecccCCchHH
Confidence            479999999999999888877677777676676666677777788888754 223332222 779999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCe-EEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLS-FLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ..+...++.-...  ...|.++|++|+|+.+..+....+-.+++++++++ .+.+|.+..-. .++|..|+..+.-=+
T Consensus       512 ~~~a~v~~~~~~~--~~~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i~~P~~~S~~~~~s-~~lf~kL~~~A~~Ph  586 (625)
T KOG1707|consen  512 EYLAEVYNKYFDL--YKIPCLMVATKADLDEVPQRYSIQPDEFCRQLGLPPPIHISSKTLSS-NELFIKLATMAQYPH  586 (625)
T ss_pred             HHHHHHHHHhhhc--cCCceEEEeeccccchhhhccCCChHHHHHhcCCCCCeeeccCCCCC-chHHHHHHHhhhCCC
Confidence            9887776665444  68999999999999776654444558899999975 56777775333 899999988665443

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.38  E-value=2.3e-12  Score=98.00  Aligned_cols=154  Identities=15%  Similarity=0.123  Sum_probs=107.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh-----hhcc----chhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER-----YHSL----APMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-----~~~~----~~~~~~~~d~~i~v   71 (181)
                      ||||||||++.+........  |...++.......++....+++++||||--.     ...+    ..+...=-.+++|+
T Consensus       177 PNVGKSSf~~~vtradvevq--pYaFTTksL~vGH~dykYlrwQViDTPGILD~plEdrN~IEmqsITALAHLraaVLYf  254 (620)
T KOG1490|consen  177 PNVGKSSFNNKVTRADDEVQ--PYAFTTKLLLVGHLDYKYLRWQVIDTPGILDRPEEDRNIIEMQIITALAHLRSAVLYF  254 (620)
T ss_pred             CCCCcHhhcccccccccccC--CcccccchhhhhhhhhheeeeeecCCccccCcchhhhhHHHHHHHHHHHHhhhhheee
Confidence            89999999998887665433  3333333344445677778999999999311     1110    01111113567888


Q ss_pred             EECCC--hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHH---HHHHHcCCeEEEEecCCCCCHHHHH
Q 030225           72 YDITS--MDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE---LYAQENGLSFLETSAKSAHNVNELF  146 (181)
Q Consensus        72 ~d~~~--~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~---~~~~~~~~~~~~~Sa~~~~gi~~~~  146 (181)
                      .|++.  +.|..+...++..+.... .++|.++++||+|+....+++++...   .....-++++++.|+.+.+|+.++.
T Consensus       255 mDLSe~CGySva~QvkLfhsIKpLF-aNK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~tS~~~eegVm~Vr  333 (620)
T KOG1490|consen  255 MDLSEMCGYSVAAQVKLYHSIKPLF-ANKVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQTSCVQEEGVMDVR  333 (620)
T ss_pred             eechhhhCCCHHHHHHHHHHhHHHh-cCCceEEEeecccccCccccCHHHHHHHHHHHhccCceEEEecccchhceeeHH
Confidence            89885  467788788888887764 57899999999999876666665432   3333345899999999999999999


Q ss_pred             HHHHHHHHhhC
Q 030225          147 YEIAKRLAEVN  157 (181)
Q Consensus       147 ~~l~~~~~~~~  157 (181)
                      ...++.+....
T Consensus       334 t~ACe~LLa~R  344 (620)
T KOG1490|consen  334 TTACEALLAAR  344 (620)
T ss_pred             HHHHHHHHHHH
Confidence            98888777653

>smart00275 G_alpha G protein alpha subunit

Probab=99.38  E-value=2.2e-11  Score=91.45  Aligned_cols=119  Identities=15%  Similarity=0.225  Sum_probs=88.9

Q ss_pred             eEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCCh----------hHHHHHHHHHHHHHHh-CCCCceEEEEEeCC
Q 030225           39 VTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSM----------DSFERAKKWVQELQRQ-GNPNLIMFLVANKV  107 (181)
Q Consensus        39 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~~~~~-~~~~~p~ivi~nK~  107 (181)
                      ..+.+.+||++|+...+..|..++.+++++|||+|+++-          ..+.+....+..+... ...++|+++++||.
T Consensus       182 ~~~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~  261 (342)
T smart00275      182 KKLFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKI  261 (342)
T ss_pred             CCeEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecH
Confidence            446678999999999999999999999999999999973          4566666666666553 23678999999999


Q ss_pred             CCccc---------------ccCCHHHHHHHHHH-----------cCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225          108 DLEEK---------------RKVKNEEGELYAQE-----------NGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       108 D~~~~---------------~~~~~~~~~~~~~~-----------~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      |+-..               .....+.+..|...           ..+..+.++|.+..++..+|+.+.+.+.+..
T Consensus       262 D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~~~I~~~~  337 (342)
T smart00275      262 DLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKDIILQRN  337 (342)
T ss_pred             HhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHHHHHHHHH
Confidence            97321               01233444444333           1245578889999999999999988887754

Subunit of G proteins that contains the guanine nucleotide binding site

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.38  E-value=6e-12  Score=94.41  Aligned_cols=102  Identities=21%  Similarity=0.222  Sum_probs=72.9

Q ss_pred             CCCchhHHHHHHhhCCCC----------------------CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccc
Q 030225            1 MGTGKTSLVLRFVKGQFF----------------------DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLA   58 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~----------------------~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~   58 (181)
                      |.+|||||-.+|+--...                      .+...  |+.+.+..+.+++....+++.|||||+.|..-+
T Consensus        21 PDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqR--GISVtsSVMqF~Y~~~~iNLLDTPGHeDFSEDT   98 (528)
T COG4108          21 PDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQR--GISVTSSVMQFDYADCLVNLLDTPGHEDFSEDT   98 (528)
T ss_pred             CCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhc--CceEEeeEEEeccCCeEEeccCCCCccccchhH
Confidence            789999999998731110                      01112  445555566667777789999999999998887


Q ss_pred             hhhccCCcEEEEEEECCChhHHHH-HHHHHHHHHHhCCCCceEEEEEeCCCC
Q 030225           59 PMYYRGAAAAVVVYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDL  109 (181)
Q Consensus        59 ~~~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~p~ivi~nK~D~  109 (181)
                      ...+..+|..+.|+|+.-+  .+. ..++++.. +.  .+.|++-++||.|.
T Consensus        99 YRtLtAvDsAvMVIDaAKG--iE~qT~KLfeVc-rl--R~iPI~TFiNKlDR  145 (528)
T COG4108          99 YRTLTAVDSAVMVIDAAKG--IEPQTLKLFEVC-RL--RDIPIFTFINKLDR  145 (528)
T ss_pred             HHHHHhhheeeEEEecccC--ccHHHHHHHHHH-hh--cCCceEEEeecccc
Confidence            8888899999999998743  332 23333333 32  58999999999995

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.35  E-value=2.3e-12  Score=105.36  Aligned_cols=106  Identities=23%  Similarity=0.211  Sum_probs=71.3

Q ss_pred             CCCchhHHHHHHhhCC---------------CCCc---cccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhc
Q 030225            1 MGTGKTSLVLRFVKGQ---------------FFDF---QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY   62 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~---------------~~~~---~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   62 (181)
                      .++|||||+++|+...               +.+.   +..|+........+.+++..+++.+|||||+..|.......+
T Consensus        28 ~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~~~f~~~~~~al  107 (720)
T TIGR00490        28 IDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGHVDFGGDVTRAM  107 (720)
T ss_pred             CCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCccccHHHHHHHH
Confidence            4899999999997531               1111   111333333333444677788999999999998887778889


Q ss_pred             cCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           63 RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        63 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      +.+|++++|+|+.+.-..+. ...+.....   .+.|.++++||+|..
T Consensus       108 ~~aD~~llVvda~~g~~~~t-~~~~~~~~~---~~~p~ivviNKiD~~  151 (720)
T TIGR00490       108 RAVDGAIVVVCAVEGVMPQT-ETVLRQALK---ENVKPVLFINKVDRL  151 (720)
T ss_pred             HhcCEEEEEEecCCCCCccH-HHHHHHHHH---cCCCEEEEEEChhcc
Confidence            99999999999986432222 122222222   356778999999975

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.

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

Probab=99.35  E-value=1.2e-11  Score=79.61  Aligned_cols=106  Identities=31%  Similarity=0.395  Sum_probs=75.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccc-cceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQE-STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      .|+|||+|+.++....+...+. ++++                           +......+.+.++.+++||+.++..+
T Consensus         9 ~gvGKt~l~~~~~~~~~~~~~~~~t~~---------------------------~~~~~~~~~~s~~~~~~v~~~~~~~s   61 (124)
T smart00010        9 SGVGKVGKSARFVQFPFDYVPTVFTIG---------------------------IDVYDPTSYESFDVVLQCWRVDDRDS   61 (124)
T ss_pred             CChhHHHHHHHHhcCCccccCceehhh---------------------------hhhccccccCCCCEEEEEEEccCHHH
Confidence            4899999999998777754333 3333                           23333456778899999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHH
Q 030225           80 FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVN  143 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  143 (181)
                      ++.+  |...+......+.|.++++||.|+.+..+....+.        ..++++|+++++|+.
T Consensus        62 ~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~~~~~~~~~~--------~~~~~~s~~~~~~~~  115 (124)
T smart00010       62 ADNK--NVPEVLVGNKSDLPILVGGNRDVLEEERQVATEEG--------LEFAETSAKTPEEGE  115 (124)
T ss_pred             HHHH--hHHHHHhcCCCCCcEEEEeechhhHhhCcCCHHHH--------HHHHHHhCCCcchhh
Confidence            8766  77777665456788999999999854333333332        234567889999884

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.

>TIGR00101 ureG urease accessory protein UreG

Probab=99.34  E-value=1.8e-11  Score=85.30  Aligned_cols=102  Identities=20%  Similarity=0.211  Sum_probs=64.2

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHH
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG  120 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~  120 (181)
                      ....++++.|..-.....+ .+  +|.+|.|+|+.+.++...  .+..++      ...-++++||+|+.+......+..
T Consensus        92 ~D~iiIEt~G~~l~~~~~~-~l--~~~~i~vvD~~~~~~~~~--~~~~qi------~~ad~~~~~k~d~~~~~~~~~~~~  160 (199)
T TIGR00101        92 LEMVFIESGGDNLSATFSP-EL--ADLTIFVIDVAAGDKIPR--KGGPGI------TRSDLLVINKIDLAPMVGADLGVM  160 (199)
T ss_pred             CCEEEEECCCCCcccccch-hh--hCcEEEEEEcchhhhhhh--hhHhHh------hhccEEEEEhhhccccccccHHHH
Confidence            4556778888422122222 12  578999999987665321  111111      122488899999975323333444


Q ss_pred             HHHHHH--cCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225          121 ELYAQE--NGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       121 ~~~~~~--~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      .+.++.  .+.+++++||++|+|++++|++|.+.+
T Consensus       161 ~~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~  195 (199)
T TIGR00101       161 ERDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYA  195 (199)
T ss_pred             HHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            444444  347899999999999999999998654

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.34  E-value=1.7e-11  Score=89.74  Aligned_cols=115  Identities=23%  Similarity=0.195  Sum_probs=75.7

Q ss_pred             eeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEe
Q 030225           26 GAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVAN  105 (181)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~n  105 (181)
                      |+++.....-+.-.+-+|.+-|||||+.|..+.-.-...||+.|+++|+. ..-.+..++.- .+... ..-..+++..|
T Consensus        71 GITIDVAYRyFsT~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR-~Gvl~QTrRHs-~I~sL-LGIrhvvvAVN  147 (431)
T COG2895          71 GITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDAR-KGVLEQTRRHS-FIASL-LGIRHVVVAVN  147 (431)
T ss_pred             CceEEEEeeecccccceEEEecCCcHHHHhhhhhcccccccEEEEEEecc-hhhHHHhHHHH-HHHHH-hCCcEEEEEEe
Confidence            44444443334445557899999999999988777778899999999985 23333333332 22222 12345777799


Q ss_pred             CCCCcccccCCHHH----HHHHHHHcCC---eEEEEecCCCCCHH
Q 030225          106 KVDLEEKRKVKNEE----GELYAQENGL---SFLETSAKSAHNVN  143 (181)
Q Consensus       106 K~D~~~~~~~~~~~----~~~~~~~~~~---~~~~~Sa~~~~gi~  143 (181)
                      |+||.+..+-..++    -..|+.+.++   .++++||+.|+|+-
T Consensus       148 KmDLvdy~e~~F~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~  192 (431)
T COG2895         148 KMDLVDYSEEVFEAIVADYLAFAAQLGLKDVRFIPISALLGDNVV  192 (431)
T ss_pred             eecccccCHHHHHHHHHHHHHHHHHcCCCcceEEechhccCCccc
Confidence            99998755433333    3346777764   68999999999864

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.27  E-value=3.3e-11  Score=84.68  Aligned_cols=101  Identities=19%  Similarity=0.179  Sum_probs=60.4

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHH
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG  120 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~  120 (181)
                      ..+.++++.|.-....   .+.-..+..+.|+|+.+.+...  ... ...     ...|.++++||+|+.+.......+.
T Consensus       103 ~d~IiIEt~G~l~~~~---~~~~~~~~~i~Vvd~~~~d~~~--~~~-~~~-----~~~a~iiv~NK~Dl~~~~~~~~~~~  171 (207)
T TIGR00073       103 IDLLFIENVGNLVCPA---DFDLGEHMRVVLLSVTEGDDKP--LKY-PGM-----FKEADLIVINKADLAEAVGFDVEKM  171 (207)
T ss_pred             CCEEEEecCCCcCCCc---ccccccCeEEEEEecCcccchh--hhh-HhH-----HhhCCEEEEEHHHccccchhhHHHH
Confidence            3566777777211111   1112345556777877543211  111 111     2456899999999965333223344


Q ss_pred             HHHHHHcC--CeEEEEecCCCCCHHHHHHHHHHH
Q 030225          121 ELYAQENG--LSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus       121 ~~~~~~~~--~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      ....+..+  .+++++||++++|++++++++.+.
T Consensus       172 ~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       172 KADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             HHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            44444443  789999999999999999999774

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

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=99.27  E-value=6e-11  Score=94.11  Aligned_cols=152  Identities=20%  Similarity=0.165  Sum_probs=98.1

Q ss_pred             CCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECC----------------eEEEEEEEeCCChhhhhccchhhccCC
Q 030225            2 GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNE----------------VTIKFDIWDTAGQERYHSLAPMYYRGA   65 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~----------------~~~~~~i~D~~G~~~~~~~~~~~~~~~   65 (181)
                      .+|||-|+..+.+.++....-.+++..+....++..+                ..--+.++||||++.|..+......-|
T Consensus       485 DTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghEsFtnlRsrgsslC  564 (1064)
T KOG1144|consen  485 DTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHESFTNLRSRGSSLC  564 (1064)
T ss_pred             cccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCchhhhhhhhcccccc
Confidence            3799999999988665443334443333333333321                112468999999999999999999999


Q ss_pred             cEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc-----------------CC-------HHHHH
Q 030225           66 AAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK-----------------VK-------NEEGE  121 (181)
Q Consensus        66 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~-----------------~~-------~~~~~  121 (181)
                      |++|+|+|+..+-.-..+. -++.++.   .+.|++|++||+|..-.+.                 +.       .....
T Consensus       565 ~~aIlvvdImhGlepqtiE-Si~lLR~---rktpFivALNKiDRLYgwk~~p~~~i~~~lkkQ~k~v~~EF~~R~~~ii~  640 (1064)
T KOG1144|consen  565 DLAILVVDIMHGLEPQTIE-SINLLRM---RKTPFIVALNKIDRLYGWKSCPNAPIVEALKKQKKDVQNEFKERLNNIIV  640 (1064)
T ss_pred             ceEEEEeehhccCCcchhH-HHHHHHh---cCCCeEEeehhhhhhcccccCCCchHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            9999999998632111111 1233332   5789999999999632111                 00       00011


Q ss_pred             HHHHHcC---------------CeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225          122 LYAQENG---------------LSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus       122 ~~~~~~~---------------~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +|+. .|               +.++++||.+|+||.+++-+|++..+....
T Consensus       641 efaE-QgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m~  691 (1064)
T KOG1144|consen  641 EFAE-QGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTMV  691 (1064)
T ss_pred             HHHH-cccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHHH
Confidence            1111 11               256899999999999999999997776543

>PTZ00258 GTP-binding protein; Provisional

Probab=99.25  E-value=1.2e-10  Score=88.34  Aligned_cols=75  Identities=17%  Similarity=0.047  Sum_probs=45.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCe---------------EEEEEEEeCCChhhh----hccc---
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEV---------------TIKFDIWDTAGQERY----HSLA---   58 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~~----~~~~---   58 (181)
                      ||||||||+|+|.+........|..+.+...-.+.+.+.               ..++.++|+||-..-    ..+.   
T Consensus        30 PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~ga~~g~gLg~~f  109 (390)
T PTZ00258         30 PNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKGASEGEGLGNAF  109 (390)
T ss_pred             CCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcCCcchhHHHHHH
Confidence            899999999999876543322233222222222222221               345899999995321    1122   


Q ss_pred             hhhccCCcEEEEEEECC
Q 030225           59 PMYYRGAAAAVVVYDIT   75 (181)
Q Consensus        59 ~~~~~~~d~~i~v~d~~   75 (181)
                      ...++++|++++|+|+.
T Consensus       110 L~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258        110 LSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             HHHHHHCCEEEEEEeCC
Confidence            22367899999999974

>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=99.23  E-value=4.4e-12  Score=90.61  Aligned_cols=112  Identities=22%  Similarity=0.194  Sum_probs=58.7

Q ss_pred             EEEEEeCCChhhhhccchhhc--------cCCcEEEEEEECCChhH-HHHHHHHHHHHHHhCCCCceEEEEEeCCCCccc
Q 030225           42 KFDIWDTAGQERYHSLAPMYY--------RGAAAAVVVYDITSMDS-FERAKKWVQELQRQGNPNLIMFLVANKVDLEEK  112 (181)
Q Consensus        42 ~~~i~D~~G~~~~~~~~~~~~--------~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~  112 (181)
                      .+.++|||||.++...+...-        ...-++++++|+....+ ...+-.++..+......+.|.+.++||+|+...
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            678999999987766554433        34568889999764322 111222222222211247899999999999652


Q ss_pred             c--c--------------------CCHHHHHHHHHHcC-C-eEEEEecCCCCCHHHHHHHHHHHH
Q 030225          113 R--K--------------------VKNEEGELYAQENG-L-SFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       113 ~--~--------------------~~~~~~~~~~~~~~-~-~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      .  .                    ...+....+..+++ . .++.+|+.+++|+.+++..+-+++
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            1  0                    00001111112223 3 689999999999999999987765

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.23  E-value=1.6e-10  Score=86.95  Aligned_cols=145  Identities=17%  Similarity=0.115  Sum_probs=97.1

Q ss_pred             chhHHHHHHhhCC---CCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            4 GKTSLVLRFVKGQ---FFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         4 GKttLl~~l~~~~---~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      |||||+..+.+..   .++.....++.+.........+  ..+.|+|.||++++-...-.-+...|..++|+|+.+.-..
T Consensus        12 gkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d--~~~~fIDvpgh~~~i~~miag~~~~d~alLvV~~deGl~~   89 (447)
T COG3276          12 GKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLED--GVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADEGLMA   89 (447)
T ss_pred             cchhhhhhhcccccccchhhhhcCceEeeeeEeccCCC--CceEEeeCCCcHHHHHHHHhhhcCCceEEEEEeCccCcch
Confidence            9999999998743   3344445555555444444443  4788999999998887777777889999999999643222


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHc---CCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQEN---GLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~---~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                       ...+.+.-+...  .....+++++|+|+.+... ..+...+.....   +.+++.+|+.+|+||+++.+.|.+...
T Consensus        90 -qtgEhL~iLdll--gi~~giivltk~D~~d~~r-~e~~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk~~l~~L~~  162 (447)
T COG3276          90 -QTGEHLLILDLL--GIKNGIIVLTKADRVDEAR-IEQKIKQILADLSLANAKIFKTSAKTGRGIEELKNELIDLLE  162 (447)
T ss_pred             -hhHHHHHHHHhc--CCCceEEEEeccccccHHH-HHHHHHHHHhhcccccccccccccccCCCHHHHHHHHHHhhh
Confidence             122233333222  2344688999999865321 112222232222   467899999999999999999999884

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

Probab=99.23  E-value=3.2e-10  Score=76.95  Aligned_cols=78  Identities=27%  Similarity=0.253  Sum_probs=58.9

Q ss_pred             cEEEEEEECCChhHHHHHHHHHHHHHHhCCC--CceEEEEEeCCCCcccccCCHHHHHHHHHHcC--CeEEEEecCCCCC
Q 030225           66 AAAVVVYDITSMDSFERAKKWVQELQRQGNP--NLIMFLVANKVDLEEKRKVKNEEGELYAQENG--LSFLETSAKSAHN  141 (181)
Q Consensus        66 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~g  141 (181)
                      +.-|+|+|++..+...          .+..|  ...-++|+||.|+......+.+...+.+++.+  .+++++|+++|+|
T Consensus       119 ~~~v~VidvteGe~~P----------~K~gP~i~~aDllVInK~DLa~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G  188 (202)
T COG0378         119 HLRVVVIDVTEGEDIP----------RKGGPGIFKADLLVINKTDLAPYVGADLEVMARDAKEVNPEAPIIFTNLKTGEG  188 (202)
T ss_pred             ceEEEEEECCCCCCCc----------ccCCCceeEeeEEEEehHHhHHHhCccHHHHHHHHHHhCCCCCEEEEeCCCCcC
Confidence            3889999998654321          11011  11358889999998888887788888777765  7999999999999


Q ss_pred             HHHHHHHHHHHH
Q 030225          142 VNELFYEIAKRL  153 (181)
Q Consensus       142 i~~~~~~l~~~~  153 (181)
                      ++++++|+...+
T Consensus       189 ~~~~~~~i~~~~  200 (202)
T COG0378         189 LDEWLRFIEPQA  200 (202)
T ss_pred             HHHHHHHHHhhc
Confidence            999999997654

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.20  E-value=3.1e-10  Score=93.23  Aligned_cols=106  Identities=21%  Similarity=0.203  Sum_probs=68.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccc-----------c---ceeeeEE----EEEEEECCeEEEEEEEeCCChhhhhccchhhc
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQE-----------S---TIGAAFF----TQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY   62 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~-----------~---t~~~~~~----~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   62 (181)
                      +++|||||+.+|+.........           +   .-|.++.    ...+..++..+.+.++||||+..|.......+
T Consensus        29 ~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG~~df~~~~~~~l  108 (731)
T PRK07560         29 IDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPGHVDFGGDVTRAM  108 (731)
T ss_pred             CCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCCccChHHHHHHHH
Confidence            4799999999998633221100           0   0011111    11222344577899999999998888888889


Q ss_pred             cCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           63 RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        63 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      +.+|++++|+|+...-... ....+......   +.|.++++||+|+.
T Consensus       109 ~~~D~avlVvda~~g~~~~-t~~~~~~~~~~---~~~~iv~iNK~D~~  152 (731)
T PRK07560        109 RAVDGAIVVVDAVEGVMPQ-TETVLRQALRE---RVKPVLFINKVDRL  152 (731)
T ss_pred             HhcCEEEEEEECCCCCCcc-HHHHHHHHHHc---CCCeEEEEECchhh
Confidence            9999999999988653222 22333333232   35678889999975

>cd01882 BMS1 Bms1

Probab=99.19  E-value=2.8e-10  Score=80.93  Aligned_cols=128  Identities=16%  Similarity=0.141  Sum_probs=72.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||+|||||++.+.+...........|. +   .+ ......++.++|+||..  ..+ ....+.+|++++++|++.....
T Consensus        48 ~~~GKstl~~~l~~~~~~~~~~~~~g~-i---~i-~~~~~~~i~~vDtPg~~--~~~-l~~ak~aDvVllviDa~~~~~~  119 (225)
T cd01882          48 PGVGKTTLIKSLVKNYTKQNISDIKGP-I---TV-VTGKKRRLTFIECPNDI--NAM-IDIAKVADLVLLLIDASFGFEM  119 (225)
T ss_pred             CCCCHHHHHHHHHhhcccCcccccccc-E---EE-EecCCceEEEEeCCchH--HHH-HHHHHhcCEEEEEEecCcCCCH
Confidence            689999999999865322111111221 1   11 11245578899999864  222 2345789999999998754332


Q ss_pred             HHHHHHHHHHHHhCCCCceE-EEEEeCCCCcccccCC---HHHHHH-HHHHc--CCeEEEEecCCCC
Q 030225           81 ERAKKWVQELQRQGNPNLIM-FLVANKVDLEEKRKVK---NEEGEL-YAQEN--GLSFLETSAKSAH  140 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~-ivi~nK~D~~~~~~~~---~~~~~~-~~~~~--~~~~~~~Sa~~~~  140 (181)
                      .. ...+..+...   +.|. ++++||.|+.......   ..+... +..+.  +.+++.+||+++-
T Consensus       120 ~~-~~i~~~l~~~---g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~~~  182 (225)
T cd01882         120 ET-FEFLNILQVH---GFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGIVHG  182 (225)
T ss_pred             HH-HHHHHHHHHc---CCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeeccCC
Confidence            22 2333334333   4564 5599999985322111   111211 22222  3689999999873

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.

>cd01855 YqeH YqeH

Probab=99.19  E-value=1.8e-10  Score=79.91  Aligned_cols=94  Identities=27%  Similarity=0.208  Sum_probs=65.9

Q ss_pred             hhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHH-----HHcC
Q 030225           54 YHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYA-----QENG  128 (181)
Q Consensus        54 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~-----~~~~  128 (181)
                      +..++..+++++|++++|+|++++..     .|...+... ..++|+++|+||+|+.... ........+.     ...+
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~-~~~~~~ilV~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~   96 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLF-GGNNPVILVGNKIDLLPKD-KNLVRIKNWLRAKAAAGLG   96 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCC-----ccchhHHHh-cCCCcEEEEEEchhcCCCC-CCHHHHHHHHHHHHHhhcC
Confidence            57778889999999999999987542     122222222 2468999999999986432 2233333333     2233


Q ss_pred             C---eEEEEecCCCCCHHHHHHHHHHHHH
Q 030225          129 L---SFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       129 ~---~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      .   .++.+||+++.|+++++++|.+.+.
T Consensus        97 ~~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          97 LKPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3   6899999999999999999988764

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.19  E-value=3e-10  Score=84.56  Aligned_cols=108  Identities=15%  Similarity=0.094  Sum_probs=68.2

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC--CH
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV--KN  117 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~--~~  117 (181)
                      .+.+.|+||+|.......   ....+|.++++.+...++.+..+.   ..+.+.     .-++|+||+|+......  ..
T Consensus       148 g~d~viieT~Gv~qs~~~---i~~~aD~vlvv~~p~~gd~iq~~k---~gi~E~-----aDIiVVNKaDl~~~~~a~~~~  216 (332)
T PRK09435        148 GYDVILVETVGVGQSETA---VAGMVDFFLLLQLPGAGDELQGIK---KGIMEL-----ADLIVINKADGDNKTAARRAA  216 (332)
T ss_pred             CCCEEEEECCCCccchhH---HHHhCCEEEEEecCCchHHHHHHH---hhhhhh-----hheEEeehhcccchhHHHHHH
Confidence            467899999997633322   456799999997755555443322   212222     23799999998642211  11


Q ss_pred             HHHHHHHHH-------cCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225          118 EEGELYAQE-------NGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus       118 ~~~~~~~~~-------~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      .+.......       +..+++.+||+++.|++++++.|.+.+....+
T Consensus       217 ~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~~l~~  264 (332)
T PRK09435        217 AEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRAALTA  264 (332)
T ss_pred             HHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence            112222211       22579999999999999999999987664443

>PRK09866 hypothetical protein; Provisional

Probab=99.18  E-value=5.6e-10  Score=88.35  Aligned_cols=109  Identities=15%  Similarity=0.190  Sum_probs=73.0

Q ss_pred             EEEEEEeCCChhhh-----hccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC
Q 030225           41 IKFDIWDTAGQERY-----HSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV  115 (181)
Q Consensus        41 ~~~~i~D~~G~~~~-----~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~  115 (181)
                      .++.|+||||-...     .......+.++|+++||+|..+.-+..+ ...++.+... ....|+++|+||+|+.+....
T Consensus       230 ~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk~-~K~~PVILVVNKIDl~dreed  307 (741)
T PRK09866        230 GQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD-EEVREAILAV-GQSVPLYVLVNKFDQQDRNSD  307 (741)
T ss_pred             CCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH-HHHHHHHHhc-CCCCCEEEEEEcccCCCcccc
Confidence            47899999996431     2223447899999999999987433322 1233334332 223599999999998643333


Q ss_pred             CHHHHHHHHHHc----C---CeEEEEecCCCCCHHHHHHHHHH
Q 030225          116 KNEEGELYAQEN----G---LSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus       116 ~~~~~~~~~~~~----~---~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      ..+....+....    +   ..++++||++|.|++.+++.|..
T Consensus       308 dkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        308 DADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             hHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            344555543321    2   35899999999999999999976

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=99.18  E-value=3.4e-10  Score=82.92  Aligned_cols=107  Identities=11%  Similarity=0.093  Sum_probs=58.5

Q ss_pred             CCCchhHHHHHHhhCCCCCcc-ccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhcc-------chhhc--cCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ-ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSL-------APMYY--RGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-------~~~~~--~~~d~~i~   70 (181)
                      +|+||||++|+|++....... ....+..........  ...++.+|||||..+....       ...++  ...|+++|
T Consensus        47 tGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~--~G~~l~VIDTPGL~d~~~~~e~~~~~ik~~l~~~g~DvVLy  124 (313)
T TIGR00991        47 GGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTR--AGFTLNIIDTPGLIEGGYINDQAVNIIKRFLLGKTIDVLLY  124 (313)
T ss_pred             CCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEE--CCeEEEEEECCCCCchHHHHHHHHHHHHHHhhcCCCCEEEE
Confidence            699999999999987643211 111121111122223  3457899999996532111       11222  26899999


Q ss_pred             EEECCChhHHHH-HHHHHHHHHHhCC--CCceEEEEEeCCCCc
Q 030225           71 VYDITSMDSFER-AKKWVQELQRQGN--PNLIMFLVANKVDLE  110 (181)
Q Consensus        71 v~d~~~~~s~~~-~~~~~~~~~~~~~--~~~p~ivi~nK~D~~  110 (181)
                      |..++.. .+.. -...++.+.....  --.++++++|+.|..
T Consensus       125 V~rLD~~-R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~  166 (313)
T TIGR00991       125 VDRLDAY-RVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFS  166 (313)
T ss_pred             EeccCcc-cCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccC
Confidence            9655422 1211 1223333333221  124689999999965

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.18  E-value=1e-10  Score=97.24  Aligned_cols=68  Identities=18%  Similarity=0.160  Sum_probs=52.7

Q ss_pred             eEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           39 VTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        39 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      ..+.++++||||+.+|.......++.+|++|+|+|+.++-.... +..+..+..   .+.|.++++||+|+.
T Consensus        96 ~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t-~~~~~~~~~---~~~p~i~~iNK~D~~  163 (843)
T PLN00116         96 NEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQT-ETVLRQALG---ERIRPVLTVNKMDRC  163 (843)
T ss_pred             CceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccH-HHHHHHHHH---CCCCEEEEEECCccc
Confidence            36788999999999998888888999999999999986543322 233333333   467999999999985

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.18  E-value=8.1e-10  Score=81.04  Aligned_cols=153  Identities=17%  Similarity=0.154  Sum_probs=88.1

Q ss_pred             CCchhHHHHHHhhCCCC----C---ccccceeeeEEEEEEEE-------CCeEEEEEEEeCCChhhhhccchhhccCCcE
Q 030225            2 GTGKTSLVLRFVKGQFF----D---FQESTIGAAFFTQVLSL-------NEVTIKFDIWDTAGQERYHSLAPMYYRGAAA   67 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~----~---~~~~t~~~~~~~~~~~~-------~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   67 (181)
                      .||||||.++|..-...    .   .....++.+.....+.+       .+..++|.++|+|||.......-.-.+-.|.
T Consensus        17 DSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHasLIRtiiggaqiiDl   96 (522)
T KOG0461|consen   17 DSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHASLIRTIIGGAQIIDL   96 (522)
T ss_pred             cCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHHHHHHHHhhhheeee
Confidence            48999999999753221    1   11122222322222222       3566889999999997654433333445689


Q ss_pred             EEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccc--ccCCHHHHH-HHHHH---c----CCeEEEEecC
Q 030225           68 AVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEK--RKVKNEEGE-LYAQE---N----GLSFLETSAK  137 (181)
Q Consensus        68 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~--~~~~~~~~~-~~~~~---~----~~~~~~~Sa~  137 (181)
                      .++|+|+....--+....++  +-+.  ..+..++|+||+|...+  +....++.. ...+.   .    +.|++++||.
T Consensus        97 m~lviDv~kG~QtQtAEcLi--ig~~--~c~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~f~g~~PI~~vsa~  172 (522)
T KOG0461|consen   97 MILVIDVQKGKQTQTAECLI--IGEL--LCKKLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTGFDGNSPIVEVSAA  172 (522)
T ss_pred             eeEEEehhcccccccchhhh--hhhh--hccceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcCcCCCCceeEEecC
Confidence            99999998543222222111  1111  23347777888886432  222222222 22221   1    2689999999


Q ss_pred             CC----CCHHHHHHHHHHHHHhhCC
Q 030225          138 SA----HNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus       138 ~~----~gi~~~~~~l~~~~~~~~~  158 (181)
                      .|    ++|.++.+.|.+++.+-+.
T Consensus       173 ~G~~~~~~i~eL~e~l~s~if~P~R  197 (522)
T KOG0461|consen  173 DGYFKEEMIQELKEALESRIFEPKR  197 (522)
T ss_pred             CCccchhHHHHHHHHHHHhhcCCCc
Confidence            99    7888888888887765433

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=99.17  E-value=2.2e-10  Score=88.80  Aligned_cols=117  Identities=20%  Similarity=0.241  Sum_probs=79.4

Q ss_pred             eeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHH-------HHHHHHHHHHhCCCCc
Q 030225           26 GAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFER-------AKKWVQELQRQGNPNL   98 (181)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~-------~~~~~~~~~~~~~~~~   98 (181)
                      |++.......++-....+.|.|+||+..|....-.-...+|++++|+|++- ..|+.       .++....++..+  -.
T Consensus       240 GvTm~v~~~~fes~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~-~~FE~gfd~~gQtrEha~llr~Lg--i~  316 (603)
T KOG0458|consen  240 GVTMDVKTTWFESKSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDAST-GEFESGFDPGGQTREHALLLRSLG--IS  316 (603)
T ss_pred             ceeEEeeeEEEecCceeEEEecCCCccccchhhhccccccceEEEEEECCc-chhhhccCCCCchHHHHHHHHHcC--cc
Confidence            445555555566666788999999999998888888889999999999874 33331       233333333332  34


Q ss_pred             eEEEEEeCCCCcccccCCHHHHHH----HH-HHcC-----CeEEEEecCCCCCHHHH
Q 030225           99 IMFLVANKVDLEEKRKVKNEEGEL----YA-QENG-----LSFLETSAKSAHNVNEL  145 (181)
Q Consensus        99 p~ivi~nK~D~~~~~~~~~~~~~~----~~-~~~~-----~~~~~~Sa~~~~gi~~~  145 (181)
                      ..+|++||.|+.+..+...++...    |. +..|     +.++.+|+..|+|+-..
T Consensus       317 qlivaiNKmD~V~Wsq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  317 QLIVAINKMDLVSWSQDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             eEEEEeecccccCccHHHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence            578889999998755544444332    33 3333     47999999999987543

>PTZ00416 elongation factor 2; Provisional

Probab=99.16  E-value=1.5e-10  Score=96.14  Aligned_cols=67  Identities=19%  Similarity=0.228  Sum_probs=51.8

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      ...+.++||||+.+|.......++.+|++|+|+|+.++-... ....+..+..   .+.|.++++||+|+.
T Consensus        91 ~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~-t~~~~~~~~~---~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         91 PFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQ-TETVLRQALQ---ERIRPVLFINKVDRA  157 (836)
T ss_pred             ceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCcc-HHHHHHHHHH---cCCCEEEEEEChhhh
Confidence            567899999999998888888899999999999998753322 2333344433   357899999999985

>cd01859 MJ1464 MJ1464

Probab=99.16  E-value=1.5e-10  Score=77.73  Aligned_cols=95  Identities=18%  Similarity=0.150  Sum_probs=64.6

Q ss_pred             hccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEE
Q 030225           55 HSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLET  134 (181)
Q Consensus        55 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  134 (181)
                      +.+.+..++++|++++|+|++++..... ..+...+ .  ..++|+++++||+|+......  .....+....+.+++.+
T Consensus         3 ~~~~~~i~~~aD~vl~V~D~~~~~~~~~-~~l~~~~-~--~~~~p~iiv~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~i   76 (156)
T cd01859           3 KRLVRRIIKESDVVLEVLDARDPELTRS-RKLERYV-L--ELGKKLLIVLNKADLVPKEVL--EKWKSIKESEGIPVVYV   76 (156)
T ss_pred             HHHHHHHHhhCCEEEEEeeCCCCcccCC-HHHHHHH-H--hCCCcEEEEEEhHHhCCHHHH--HHHHHHHHhCCCcEEEE
Confidence            4456778889999999999987543221 1122222 1  136899999999998532111  11112334456789999


Q ss_pred             ecCCCCCHHHHHHHHHHHHHh
Q 030225          135 SAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       135 Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ||+++.|++++++.+.+.+..
T Consensus        77 Sa~~~~gi~~L~~~l~~~~~~   97 (156)
T cd01859          77 SAKERLGTKILRRTIKELAKI   97 (156)
T ss_pred             EccccccHHHHHHHHHHHHhh
Confidence            999999999999999887754

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.

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.14  E-value=4.8e-10  Score=80.68  Aligned_cols=107  Identities=12%  Similarity=0.085  Sum_probs=59.1

Q ss_pred             CCCchhHHHHHHhhCCCCCcccc-ceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc---c-------chhhcc--CCcE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQES-TIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS---L-------APMYYR--GAAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~-t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---~-------~~~~~~--~~d~   67 (181)
                      +|||||||+|+|++......... ..+..........+  ..++.+|||||-.....   .       ...++.  ..|+
T Consensus        40 tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~--g~~i~vIDTPGl~~~~~~~~~~~~~~~~I~~~l~~~~idv  117 (249)
T cd01853          40 TGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTVD--GFKLNIIDTPGLLESVMDQRVNRKILSSIKRYLKKKTPDV  117 (249)
T ss_pred             CCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEEC--CeEEEEEECCCcCcchhhHHHHHHHHHHHHHHHhccCCCE
Confidence            69999999999998765432211 11112222222233  35788999999643310   0       122333  5788


Q ss_pred             EEEEEECCChh-HHHHHHHHHHHHHHhCCC--CceEEEEEeCCCCc
Q 030225           68 AVVVYDITSMD-SFERAKKWVQELQRQGNP--NLIMFLVANKVDLE  110 (181)
Q Consensus        68 ~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~--~~p~ivi~nK~D~~  110 (181)
                      ++||..++... ... -...++.+.+....  -.+++++.||+|..
T Consensus       118 IL~V~rlD~~r~~~~-d~~llk~I~e~fG~~i~~~~ivV~T~~d~~  162 (249)
T cd01853         118 VLYVDRLDMYRRDYL-DLPLLRAITDSFGPSIWRNAIVVLTHAASS  162 (249)
T ss_pred             EEEEEcCCCCCCCHH-HHHHHHHHHHHhChhhHhCEEEEEeCCccC
Confidence            88887655321 111 12333334332211  24699999999974

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.

>PRK12289 GTPase RsgA; Reviewed

Probab=99.13  E-value=3.9e-10  Score=84.81  Aligned_cols=92  Identities=15%  Similarity=0.166  Sum_probs=67.9

Q ss_pred             ccchhhccCCcEEEEEEECCChh-HHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEE
Q 030225           56 SLAPMYYRGAAAAVVVYDITSMD-SFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLET  134 (181)
Q Consensus        56 ~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  134 (181)
                      .+....+.++|.+++|+|+.++. ....+.+|+.....   .++|+++|+||+|+....+.  .........+++.++.+
T Consensus        81 ~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~---~~ip~ILVlNK~DLv~~~~~--~~~~~~~~~~g~~v~~i  155 (352)
T PRK12289         81 ELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES---TGLEIVLCLNKADLVSPTEQ--QQWQDRLQQWGYQPLFI  155 (352)
T ss_pred             ceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEchhcCChHHH--HHHHHHHHhcCCeEEEE
Confidence            34455689999999999998876 44456777766532   46899999999999542221  12223334678899999


Q ss_pred             ecCCCCCHHHHHHHHHHH
Q 030225          135 SAKSAHNVNELFYEIAKR  152 (181)
Q Consensus       135 Sa~~~~gi~~~~~~l~~~  152 (181)
                      ||+++.|++++++.|...
T Consensus       156 SA~tg~GI~eL~~~L~~k  173 (352)
T PRK12289        156 SVETGIGLEALLEQLRNK  173 (352)
T ss_pred             EcCCCCCHHHHhhhhccc
Confidence            999999999999998653

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.11  E-value=3.7e-10  Score=91.24  Aligned_cols=106  Identities=21%  Similarity=0.146  Sum_probs=75.7

Q ss_pred             CCchhHHHHHHhhCCCCCccc----------------cceeeeEEEEEEEECCe-EEEEEEEeCCChhhhhccchhhccC
Q 030225            2 GTGKTSLVLRFVKGQFFDFQE----------------STIGAAFFTQVLSLNEV-TIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~----------------~t~~~~~~~~~~~~~~~-~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      .+|||||..+++.........                ..-|.++......+.+. .++++++|||||.+|.......++-
T Consensus        20 daGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~~~~iNlIDTPGHVDFt~EV~rslrv   99 (697)
T COG0480          20 DAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKGDYRINLIDTPGHVDFTIEVERSLRV   99 (697)
T ss_pred             CCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcCceEEEEeCCCCccccHHHHHHHHHh
Confidence            589999999998532221110                01245555555555555 4899999999999999999999999


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      +|++++|+|+...-..+.-.-|.+.. +   .++|.++++||.|...
T Consensus       100 lDgavvVvdaveGV~~QTEtv~rqa~-~---~~vp~i~fiNKmDR~~  142 (697)
T COG0480         100 LDGAVVVVDAVEGVEPQTETVWRQAD-K---YGVPRILFVNKMDRLG  142 (697)
T ss_pred             hcceEEEEECCCCeeecHHHHHHHHh-h---cCCCeEEEEECccccc
Confidence            99999999998654333333343332 2   4689999999999754

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.11  E-value=2.6e-09  Score=80.27  Aligned_cols=75  Identities=17%  Similarity=0.075  Sum_probs=45.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCe---------------EEEEEEEeCCChhh----hhccchh-
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEV---------------TIKFDIWDTAGQER----YHSLAPM-   60 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~----~~~~~~~-   60 (181)
                      ||||||||+|+|.+........|.++.+...-.+.+.+.               ..++.+.|+||-..    ...+... 
T Consensus        11 PNvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~~g~glg~~f   90 (364)
T PRK09601         11 PNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGEGLGNQF   90 (364)
T ss_pred             CCCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCChHHHHHHHH
Confidence            899999999999987643222122222222222222221               13689999999532    1122222 


Q ss_pred             --hccCCcEEEEEEECC
Q 030225           61 --YYRGAAAAVVVYDIT   75 (181)
Q Consensus        61 --~~~~~d~~i~v~d~~   75 (181)
                        .++++|++++|+|+.
T Consensus        91 L~~i~~aD~li~VVd~f  107 (364)
T PRK09601         91 LANIREVDAIVHVVRCF  107 (364)
T ss_pred             HHHHHhCCEEEEEEeCC
Confidence              367899999999984

>cd01854 YjeQ_engC YjeQ/EngC

Probab=99.10  E-value=5e-10  Score=82.42  Aligned_cols=88  Identities=17%  Similarity=0.166  Sum_probs=67.9

Q ss_pred             hhhccCCcEEEEEEECCChh-HHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecC
Q 030225           59 PMYYRGAAAAVVVYDITSMD-SFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAK  137 (181)
Q Consensus        59 ~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  137 (181)
                      +..+.++|++++|+|+.++. ++..+.+|+..+..   .++|+++++||+|+.+..+  ......+....+.+++.+||+
T Consensus        73 ~~i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~---~~ip~iIVlNK~DL~~~~~--~~~~~~~~~~~g~~v~~vSA~  147 (287)
T cd01854          73 QVIAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEA---AGIEPVIVLTKADLLDDEE--EELELVEALALGYPVLAVSAK  147 (287)
T ss_pred             eeEEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHH---cCCCEEEEEEHHHCCChHH--HHHHHHHHHhCCCeEEEEECC
Confidence            44588999999999999887 78888888877654   3688999999999954311  112233344568899999999


Q ss_pred             CCCCHHHHHHHHHH
Q 030225          138 SAHNVNELFYEIAK  151 (181)
Q Consensus       138 ~~~gi~~~~~~l~~  151 (181)
                      ++.|+++++.+|..
T Consensus       148 ~g~gi~~L~~~L~~  161 (287)
T cd01854         148 TGEGLDELREYLKG  161 (287)
T ss_pred             CCccHHHHHhhhcc
Confidence            99999999988764

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.10  E-value=5.7e-10  Score=82.68  Aligned_cols=104  Identities=21%  Similarity=0.084  Sum_probs=64.7

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHH
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEE  119 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~  119 (181)
                      .+.+.|+||+|.....   ...+..+|.++++-+..   +-+++......+     ..+|.++++||+|+..........
T Consensus       126 g~D~viidT~G~~~~e---~~i~~~aD~i~vv~~~~---~~~el~~~~~~l-----~~~~~ivv~NK~Dl~~~~~~~~~~  194 (300)
T TIGR00750       126 GYDVIIVETVGVGQSE---VDIANMADTFVVVTIPG---TGDDLQGIKAGL-----MEIADIYVVNKADGEGATNVTIAR  194 (300)
T ss_pred             CCCEEEEeCCCCchhh---hHHHHhhceEEEEecCC---ccHHHHHHHHHH-----hhhccEEEEEcccccchhHHHHHH
Confidence            4678999999864222   22466688888885433   333444433333     346779999999986432211000


Q ss_pred             ------HHHHHH---HcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225          120 ------GELYAQ---ENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       120 ------~~~~~~---~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                            ...+..   .+..+++.+||++++|+++++++|.+...
T Consensus       195 ~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       195 LMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             HHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence                  011111   12246899999999999999999998644

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.

>cd01900 YchF YchF subfamily

Probab=99.09  E-value=2.4e-09  Score=77.89  Aligned_cols=75  Identities=15%  Similarity=0.053  Sum_probs=45.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCe---------------EEEEEEEeCCChhh----hhccchh-
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEV---------------TIKFDIWDTAGQER----YHSLAPM-   60 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~----~~~~~~~-   60 (181)
                      ||||||||+|+|.+........|..+.+...-.+.+.+.               ..++.++|+||-..    ...+... 
T Consensus         7 PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~glg~~f   86 (274)
T cd01900           7 PNVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGEGLGNKF   86 (274)
T ss_pred             CCCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhhHHHHHH
Confidence            899999999999987763322233322222222233322               23589999999532    1122222 


Q ss_pred             --hccCCcEEEEEEECC
Q 030225           61 --YYRGAAAAVVVYDIT   75 (181)
Q Consensus        61 --~~~~~d~~i~v~d~~   75 (181)
                        .++++|++++|+|+.
T Consensus        87 L~~i~~~D~li~VV~~f  103 (274)
T cd01900          87 LSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHhCCEEEEEEeCc
Confidence              356899999999874

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.

>PRK00098 GTPase RsgA; Reviewed

Probab=99.08  E-value=5.8e-10  Score=82.49  Aligned_cols=86  Identities=22%  Similarity=0.209  Sum_probs=64.5

Q ss_pred             hccCCcEEEEEEECCChhHHHH-HHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCC
Q 030225           61 YYRGAAAAVVVYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSA  139 (181)
Q Consensus        61 ~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  139 (181)
                      .+.++|++++|+|+.+++.... +.+|+..+..   .++|+++++||+|+.+..+. ........+..+++++++||+++
T Consensus        77 iaaniD~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlNK~DL~~~~~~-~~~~~~~~~~~g~~v~~vSA~~g  152 (298)
T PRK00098         77 IAANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLNKIDLLDDLEE-ARELLALYRAIGYDVLELSAKEG  152 (298)
T ss_pred             eeecCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEhHHcCCCHHH-HHHHHHHHHHCCCeEEEEeCCCC
Confidence            4589999999999988766444 5677766643   46899999999999532221 12233445567889999999999


Q ss_pred             CCHHHHHHHHH
Q 030225          140 HNVNELFYEIA  150 (181)
Q Consensus       140 ~gi~~~~~~l~  150 (181)
                      +|++++++.+.
T Consensus       153 ~gi~~L~~~l~  163 (298)
T PRK00098        153 EGLDELKPLLA  163 (298)
T ss_pred             ccHHHHHhhcc
Confidence            99999998874

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.08  E-value=4.8e-09  Score=77.98  Aligned_cols=130  Identities=18%  Similarity=0.269  Sum_probs=92.5

Q ss_pred             cceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCCh----------hHHHHHHHHHHHHHH
Q 030225           23 STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSM----------DSFERAKKWVQELQR   92 (181)
Q Consensus        23 ~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~~~~   92 (181)
                      +|.|  +....+.+.+  ..+.+.|+||+...+.-|.++|.+++++|||+++++-          ..+.+...+++.+..
T Consensus       181 ~T~G--I~e~~F~~k~--~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n  256 (354)
T KOG0082|consen  181 PTTG--IVEVEFTIKG--LKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICN  256 (354)
T ss_pred             CcCC--eeEEEEEeCC--CceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhc
Confidence            4444  3333444444  6788999999999999999999999999999999862          234444556666655


Q ss_pred             hC-CCCceEEEEEeCCCCccc---------------ccCCHHHHHHHHHHc----------CCeEEEEecCCCCCHHHHH
Q 030225           93 QG-NPNLIMFLVANKVDLEEK---------------RKVKNEEGELYAQEN----------GLSFLETSAKSAHNVNELF  146 (181)
Q Consensus        93 ~~-~~~~p~ivi~nK~D~~~~---------------~~~~~~~~~~~~~~~----------~~~~~~~Sa~~~~gi~~~~  146 (181)
                      .. -.+.++++++||.|+-+.               -....+++..|++..          .+.++.+.|.+..+|+.+|
T Consensus       257 ~~~F~~tsiiLFLNK~DLFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf  336 (354)
T KOG0082|consen  257 NKWFANTSIILFLNKKDLFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVF  336 (354)
T ss_pred             CcccccCcEEEEeecHHHHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHH
Confidence            32 267899999999998321               013344555554432          2456778999999999999


Q ss_pred             HHHHHHHHhh
Q 030225          147 YEIAKRLAEV  156 (181)
Q Consensus       147 ~~l~~~~~~~  156 (181)
                      +.+.+.+...
T Consensus       337 ~av~d~Ii~~  346 (354)
T KOG0082|consen  337 DAVTDTIIQN  346 (354)
T ss_pred             HHHHHHHHHH
Confidence            9999988765

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.07  E-value=4.1e-10  Score=81.75  Aligned_cols=114  Identities=16%  Similarity=0.169  Sum_probs=78.5

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc--CCHH
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK--VKNE  118 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~--~~~~  118 (181)
                      -++.|.|+|||+-.....-.-..=-|+.++|++++.+-.-....+.+..+.-.  .-+.++++-||+|+.....  ..++
T Consensus        86 R~VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIi--gik~iiIvQNKIDlV~~E~AlE~y~  163 (415)
T COG5257          86 RRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEII--GIKNIIIVQNKIDLVSRERALENYE  163 (415)
T ss_pred             EEEEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhh--ccceEEEEecccceecHHHHHHHHH
Confidence            36899999999854433222223358999999998754444445555554333  3356889999999975322  2334


Q ss_pred             HHHHHHHHc---CCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          119 EGELYAQEN---GLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       119 ~~~~~~~~~---~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +..+|.+..   +.+++.+||..+.||+-+++.|.+.+..-
T Consensus       164 qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~IptP  204 (415)
T COG5257         164 QIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPTP  204 (415)
T ss_pred             HHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCCC
Confidence            555555543   57999999999999999999998877653

>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=99.06  E-value=1.8e-09  Score=76.12  Aligned_cols=155  Identities=17%  Similarity=0.168  Sum_probs=85.3

Q ss_pred             CCCchhHHHHHHhhCCCCCcccc--ceeeeEEEEEEEECCeEEEEEEEeCCChhhhh-------c-cc---hhhccCCcE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQES--TIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH-------S-LA---PMYYRGAAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~--t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~-~~---~~~~~~~d~   67 (181)
                      +||||||++|.+++.........  .............++.  .+.++||||-.+..       . +.   .....+.++
T Consensus         9 tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g~--~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~~~~g~ha   86 (212)
T PF04548_consen    9 TGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDGR--QVTVIDTPGLFDSDGSDEEIIREIKRCLSLCSPGPHA   86 (212)
T ss_dssp             TTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETTE--EEEEEE--SSEETTEEHHHHHHHHHHHHHHTTT-ESE
T ss_pred             CCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecce--EEEEEeCCCCCCCcccHHHHHHHHHHHHHhccCCCeE
Confidence            59999999999998877554321  2222333334455664  56799999932111       1 11   112456899


Q ss_pred             EEEEEECCChhH-HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCC-------HHHHHHHHHHcCCeEEEEecC--
Q 030225           68 AVVVYDITSMDS-FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK-------NEEGELYAQENGLSFLETSAK--  137 (181)
Q Consensus        68 ~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~-------~~~~~~~~~~~~~~~~~~Sa~--  137 (181)
                      ++||+.+..... -.....++..+.... --..++|+.|..|......+.       ......+.+..+-.|+..+.+  
T Consensus        87 ~llVi~~~r~t~~~~~~l~~l~~~FG~~-~~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~li~~c~~R~~~f~n~~~  165 (212)
T PF04548_consen   87 FLLVIPLGRFTEEDREVLELLQEIFGEE-IWKHTIVVFTHADELEDDSLEDYLKKESNEALQELIEKCGGRYHVFNNKTK  165 (212)
T ss_dssp             EEEEEETTB-SHHHHHHHHHHHHHHCGG-GGGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHHHHHHTTTCEEECCTTHH
T ss_pred             EEEEEecCcchHHHHHHHHHHHHHccHH-HHhHhhHHhhhccccccccHHHHHhccCchhHhHHhhhcCCEEEEEecccc
Confidence            999999873221 112223333332221 123588888888854433210       112345566667778777766  


Q ss_pred             ----CCCCHHHHHHHHHHHHHhhCC
Q 030225          138 ----SAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus       138 ----~~~gi~~~~~~l~~~~~~~~~  158 (181)
                          ....+.++++.+-+.+.++..
T Consensus       166 ~~~~~~~qv~~Ll~~ie~mv~~n~g  190 (212)
T PF04548_consen  166 DKEKDESQVSELLEKIEEMVQENGG  190 (212)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             chhhhHHHHHHHHHHHHHHHHHcCC
Confidence                335688888888887777753

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 ....

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.04  E-value=4e-10  Score=78.21  Aligned_cols=109  Identities=21%  Similarity=0.417  Sum_probs=68.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECC-eEEEEEEEeCCChhhhhc-----cchhhccCCcEEEEEEEC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNE-VTIKFDIWDTAGQERYHS-----LAPMYYRGAAAAVVVYDI   74 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~-----~~~~~~~~~d~~i~v~d~   74 (181)
                      +|||||+|--.+. .++........|.++....-.... +++.+.+||++|++.+..     .....+++.+++|+|||+
T Consensus        13 sGsGKsSmrsiiF-~ny~a~D~~rlg~tidveHsh~RflGnl~LnlwDcGgqe~fmen~~~~q~d~iF~nV~vli~vFDv   91 (295)
T KOG3886|consen   13 SGSGKSSMRSIIF-ANYIARDTRRLGATIDVEHSHVRFLGNLVLNLWDCGGQEEFMENYLSSQEDNIFRNVQVLIYVFDV   91 (295)
T ss_pred             CCCCccccchhhh-hhhhhhhhhccCCcceeeehhhhhhhhheeehhccCCcHHHHHHHHhhcchhhheeheeeeeeeec
Confidence            6999999754433 333222222233222222222211 346789999999974432     345678999999999999


Q ss_pred             CChhH---HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           75 TSMDS---FERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        75 ~~~~s---~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      +..+-   +...+.-++.+..+ .|...+++..+|.|+..
T Consensus        92 es~e~~~D~~~yqk~Le~ll~~-SP~AkiF~l~hKmDLv~  130 (295)
T KOG3886|consen   92 ESREMEKDFHYYQKCLEALLQN-SPEAKIFCLLHKMDLVQ  130 (295)
T ss_pred             cchhhhhhHHHHHHHHHHHHhc-CCcceEEEEEeechhcc
Confidence            87543   34445555566665 37788999999999853

>PRK13768 GTPase; Provisional

Probab=99.04  E-value=3.3e-09  Score=76.76  Aligned_cols=112  Identities=19%  Similarity=0.196  Sum_probs=70.0

Q ss_pred             EEEEEeCCChhhh---hccchhhcc---C--CcEEEEEEECCChhHHHH--HHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           42 KFDIWDTAGQERY---HSLAPMYYR---G--AAAAVVVYDITSMDSFER--AKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        42 ~~~i~D~~G~~~~---~~~~~~~~~---~--~d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      .+.+||+||+.+.   +..+..+++   .  ++++++++|+........  ...|+...... ..+.|+++++||+|+..
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            5889999998653   333333322   2  899999999965432222  12233322222 24789999999999864


Q ss_pred             cccCCH--HH------------------------HHHHHHHcC--CeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225          112 KRKVKN--EE------------------------GELYAQENG--LSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       112 ~~~~~~--~~------------------------~~~~~~~~~--~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      ..+...  ..                        ..+..+..+  .+++++|+++++|++++.++|.+.+.
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            322100  00                        001122334  47899999999999999999988764

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=99.04  E-value=4.6e-10  Score=81.65  Aligned_cols=56  Identities=20%  Similarity=0.195  Sum_probs=40.3

Q ss_pred             CceEEEEEeCCCCcccccCCHHHHHHHHHHc--CCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           97 NLIMFLVANKVDLEEKRKVKNEEGELYAQEN--GLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        97 ~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      ..+-++++||+|+........+......+..  +.+++.+||++|+|++++++||.++
T Consensus       230 ~~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        230 AAASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             hcCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            3457899999999643222233334444443  4789999999999999999999774

>PRK12288 GTPase RsgA; Reviewed

Probab=99.03  E-value=2.1e-09  Score=80.89  Aligned_cols=88  Identities=17%  Similarity=0.163  Sum_probs=66.7

Q ss_pred             ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC-CHHHHHHHHHHcCCeEEEEecCCCC
Q 030225           62 YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV-KNEEGELYAQENGLSFLETSAKSAH  140 (181)
Q Consensus        62 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~  140 (181)
                      ..++|.+++|+++....++..+.+|+.....   .++|.++|+||+|+....+. ...+........+.+++++||++++
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            4679999999999887889999999875532   46789999999999643211 1122223344568899999999999


Q ss_pred             CHHHHHHHHHHH
Q 030225          141 NVNELFYEIAKR  152 (181)
Q Consensus       141 gi~~~~~~l~~~  152 (181)
                      |+++++++|...
T Consensus       195 GideL~~~L~~k  206 (347)
T PRK12288        195 GLEELEAALTGR  206 (347)
T ss_pred             CHHHHHHHHhhC
Confidence            999999998653

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=99.03  E-value=3.9e-09  Score=75.27  Aligned_cols=113  Identities=17%  Similarity=0.195  Sum_probs=65.8

Q ss_pred             EEEEEEeCCChhhh---h----ccchhh-ccCCcEEEEEEECCC---hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCC
Q 030225           41 IKFDIWDTAGQERY---H----SLAPMY-YRGAAAAVVVYDITS---MDSFERAKKWVQELQRQGNPNLIMFLVANKVDL  109 (181)
Q Consensus        41 ~~~~i~D~~G~~~~---~----~~~~~~-~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~  109 (181)
                      +...++||||+-+-   .    .+...+ -....++++|+|...   +..|-.--.+--.+.  .....|++++.||.|+
T Consensus       116 ~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlYAcSil--yktklp~ivvfNK~Dv  193 (366)
T KOG1532|consen  116 FDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLYACSIL--YKTKLPFIVVFNKTDV  193 (366)
T ss_pred             cCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHHHHHHH--HhccCCeEEEEecccc
Confidence            56889999998431   1    111111 123568888988654   333322111111122  2367899999999998


Q ss_pred             ccccc-----CCHHHHHHHHH-------------------H--cCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          110 EEKRK-----VKNEEGELYAQ-------------------E--NGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       110 ~~~~~-----~~~~~~~~~~~-------------------~--~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      .+...     -+.+.-++-.+                   +  .++..+.|||.+|.|..++|..+.+.+.+
T Consensus       194 ~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av~~~vdE  265 (366)
T KOG1532|consen  194 SDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAVDESVDE  265 (366)
T ss_pred             cccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcHHHHHHHHHHHHHH
Confidence            65211     00111111111                   0  24678999999999999999998876655

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=99.00  E-value=1.3e-09  Score=84.20  Aligned_cols=152  Identities=22%  Similarity=0.369  Sum_probs=112.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      .++|||+|+++++.+.+.+...|. |. .+.+++..++....+.+-|.+|+..     ..|-..+|++||||.+.|..+|
T Consensus        39 ~~sgktalvhr~ltgty~~~e~~e-~~-~~kkE~vv~gqs~lLlirdeg~~~~-----aQft~wvdavIfvf~~~d~~s~  111 (749)
T KOG0705|consen   39 SQSGKTALVHRYLTGTYTQDESPE-GG-RFKKEVVVDGQSHLLLIRDEGGHPD-----AQFCQWVDAVVFVFSVEDEQSF  111 (749)
T ss_pred             ccCCceeeeeeeccceeccccCCc-Cc-cceeeEEeeccceEeeeecccCCch-----hhhhhhccceEEEEEeccccCH
Confidence            368999999999999998766443 33 4466677888888889999998543     4466779999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcc--cccCCHHHHHHH-HHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEE--KRKVKNEEGELY-AQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~--~~~~~~~~~~~~-~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..+.-.+..+. ....|.++++++.-...  .+.+...++.++ ++...+.+|+.++.+|.++..+|+.++.++...
T Consensus       112 q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy~et~atyGlnv~rvf~~~~~k~i~~  191 (749)
T KOG0705|consen  112 QAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSYYETCATYGLNVERVFQEVAQKIVQL  191 (749)
T ss_pred             HHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHHHhcCccceeecchhhhhhHHHHHHHHHHHHHHH
Confidence            98887766664432 25677888777644322  233333444444 444458899999999999999999999988776


Q ss_pred             CCC
Q 030225          157 NPS  159 (181)
Q Consensus       157 ~~~  159 (181)
                      ++.
T Consensus       192 ~~~  194 (749)
T KOG0705|consen  192 RKY  194 (749)
T ss_pred             Hhh
Confidence            544

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=98.99  E-value=1.4e-08  Score=76.91  Aligned_cols=144  Identities=16%  Similarity=0.226  Sum_probs=83.1

Q ss_pred             CCchhHHHHHHhhC----CCCC----------cccccee---e----eE---EEEEE-EECCeEEEEEEEeCCChhh---
Q 030225            2 GTGKTSLVLRFVKG----QFFD----------FQESTIG---A----AF---FTQVL-SLNEVTIKFDIWDTAGQER---   53 (181)
Q Consensus         2 ~~GKttLl~~l~~~----~~~~----------~~~~t~~---~----~~---~~~~~-~~~~~~~~~~i~D~~G~~~---   53 (181)
                      ++|||||+++|.+.    ....          ..++..|   +    -+   ...++ ..++...++.++||+|-..   
T Consensus        27 rtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~VrlIDcvG~~v~Ga  106 (492)
T TIGR02836        27 RTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRLVDCVGYTVKGA  106 (492)
T ss_pred             CCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEEEECCCcccCCC
Confidence            79999999999987    3321          1112222   1    11   12222 2345567889999999311   


Q ss_pred             -----hhc------c---------------chhhcc-CCcEEEEEE-ECC--C--hhHH-HHHHHHHHHHHHhCCCCceE
Q 030225           54 -----YHS------L---------------APMYYR-GAAAAVVVY-DIT--S--MDSF-ERAKKWVQELQRQGNPNLIM  100 (181)
Q Consensus        54 -----~~~------~---------------~~~~~~-~~d~~i~v~-d~~--~--~~s~-~~~~~~~~~~~~~~~~~~p~  100 (181)
                           -..      .               +...+. .+|+.|+|. |.+  +  ++.+ +.-.+++..+...   ++|+
T Consensus       107 lG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~eLk~~---~kPf  183 (492)
T TIGR02836       107 LGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEELKEL---NKPF  183 (492)
T ss_pred             ccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHHHHhc---CCCE
Confidence                 000      0               223345 789888888 654  1  1222 2234666666554   7899


Q ss_pred             EEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCC--CCCHHHHHHHHH
Q 030225          101 FLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKS--AHNVNELFYEIA  150 (181)
Q Consensus       101 ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~--~~gi~~~~~~l~  150 (181)
                      ++++||.|.....  .......+..+++.+++.+|+.+  .+.|..+++.++
T Consensus       184 iivlN~~dp~~~e--t~~l~~~l~eky~vpvl~v~c~~l~~~DI~~il~~vL  233 (492)
T TIGR02836       184 IILLNSTHPYHPE--TEALRQELEEKYDVPVLAMDVESMRESDILSVLEEVL  233 (492)
T ss_pred             EEEEECcCCCCch--hHHHHHHHHHHhCCceEEEEHHHcCHHHHHHHHHHHH
Confidence            9999999942211  33334455666788888887764  345555555443

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.

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=98.96  E-value=1.1e-09  Score=79.67  Aligned_cols=145  Identities=19%  Similarity=0.172  Sum_probs=89.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh---------hhhccchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE---------RYHSLAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~~~~~d~~i~v   71 (181)
                      .|+|||||+++|.+....+..+-.-+.+..........++ .+.+.||-|--         .|.... .-...+|+++.|
T Consensus       187 TNaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~Lpsg~-~vlltDTvGFisdLP~~LvaAF~ATL-eeVaeadlllHv  264 (410)
T KOG0410|consen  187 TNAGKSTLIKALTKAALYPNDRLFATLDPTLHSAHLPSGN-FVLLTDTVGFISDLPIQLVAAFQATL-EEVAEADLLLHV  264 (410)
T ss_pred             cCccHHHHHHHHHhhhcCccchhheeccchhhhccCCCCc-EEEEeechhhhhhCcHHHHHHHHHHH-HHHhhcceEEEE
Confidence            4899999999999766655443322222223333344333 46788998831         222222 235679999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhCCCCceE----EEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHH
Q 030225           72 YDITSMDSFERAKKWVQELQRQGNPNLIM----FLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFY  147 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~----ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~  147 (181)
                      .|++.|+.-......+..+....-+..|.    +=|=||.|...... .       ..+++  .+.+||++|+|++++.+
T Consensus       265 vDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~~-e-------~E~n~--~v~isaltgdgl~el~~  334 (410)
T KOG0410|consen  265 VDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDEV-E-------EEKNL--DVGISALTGDGLEELLK  334 (410)
T ss_pred             eecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccccC-c-------cccCC--ccccccccCccHHHHHH
Confidence            99999887655555555565543333333    33346666533111 1       11222  57789999999999999


Q ss_pred             HHHHHHHhhC
Q 030225          148 EIAKRLAEVN  157 (181)
Q Consensus       148 ~l~~~~~~~~  157 (181)
                      .+-.++....
T Consensus       335 a~~~kv~~~t  344 (410)
T KOG0410|consen  335 AEETKVASET  344 (410)
T ss_pred             HHHHHhhhhh
Confidence            9887776543

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.95  E-value=5.2e-09  Score=79.41  Aligned_cols=95  Identities=28%  Similarity=0.335  Sum_probs=69.1

Q ss_pred             hhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHH----HHHHH
Q 030225           51 QERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE----LYAQE  126 (181)
Q Consensus        51 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~----~~~~~  126 (181)
                      .+.|..+...+...++++++|+|+.|...     .|...+.+.. .+.|+++|+||+|+.. .....+...    +++++
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~~-----s~~~~l~~~~-~~~piilV~NK~DLl~-k~~~~~~~~~~l~~~~k~  122 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFEG-----SLIPELKRFV-GGNPVLLVGNKIDLLP-KSVNLSKIKEWMKKRAKE  122 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCCC-----CccHHHHHHh-CCCCEEEEEEchhhCC-CCCCHHHHHHHHHHHHHH
Confidence            45677788888899999999999987542     2444444432 3678999999999864 222333333    34556


Q ss_pred             cCC---eEEEEecCCCCCHHHHHHHHHHH
Q 030225          127 NGL---SFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus       127 ~~~---~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      .++   .++.+||+++.|++++++.|.+.
T Consensus       123 ~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       123 LGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             cCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            676   48999999999999999999664

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.

>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=98.94  E-value=5.1e-09  Score=71.09  Aligned_cols=63  Identities=19%  Similarity=0.171  Sum_probs=43.0

Q ss_pred             EEEEEeCCChhh----hhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCC
Q 030225           42 KFDIWDTAGQER----YHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKV  107 (181)
Q Consensus        42 ~~~i~D~~G~~~----~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~  107 (181)
                      .+.|+|+||-..    ...++..++..+|++|+|.+++....-.+...+.+.....   ...+++|.||.
T Consensus       102 ~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~---~~~~i~V~nk~  168 (168)
T PF00350_consen  102 NLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPD---KSRTIFVLNKA  168 (168)
T ss_dssp             SEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTT---CSSEEEEEE-G
T ss_pred             ceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCC---CCeEEEEEcCC
Confidence            478999999642    2345677889999999999999855544444444444332   34488888884

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 ....

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=98.94  E-value=8e-09  Score=77.74  Aligned_cols=149  Identities=15%  Similarity=0.161  Sum_probs=70.2

Q ss_pred             CCCchhHHHHHHhhCCCCCcccccee---eeEEEEEEEECCeEEEEEEEeCCChhhhhccc-----hhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIG---AAFFTQVLSLNEVTIKFDIWDTAGQERYHSLA-----PMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~---~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~-----~~~~~~~d~~i~v~   72 (181)
                      +|+|||||+|+|.+-.-.+.....+|   ++.....+.....+ .+.+||.||-.......     ..-+...|.+|++.
T Consensus        44 sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p~~p-nv~lWDlPG~gt~~f~~~~Yl~~~~~~~yD~fiii~  122 (376)
T PF05049_consen   44 SGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHPKFP-NVTLWDLPGIGTPNFPPEEYLKEVKFYRYDFFIIIS  122 (376)
T ss_dssp             TTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-SS-T-TEEEEEE--GGGSS--HHHHHHHTTGGG-SEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCCCCC-CCeEEeCCCCCCCCCCHHHHHHHccccccCEEEEEe
Confidence            69999999999986332221111111   12222222222211 36799999964322222     22356679888876


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc--c-----cccCCHH----HHHHHHHH----cC---CeEEEE
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE--E-----KRKVKNE----EGELYAQE----NG---LSFLET  134 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~--~-----~~~~~~~----~~~~~~~~----~~---~~~~~~  134 (181)
                      +-    .|....-++......  .++|+.+|-+|.|..  .     .+...++    +.++.+.+    .+   .++|-+
T Consensus       123 s~----rf~~ndv~La~~i~~--~gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~~c~~~L~k~gv~~P~VFLV  196 (376)
T PF05049_consen  123 SE----RFTENDVQLAKEIQR--MGKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRENCLENLQKAGVSEPQVFLV  196 (376)
T ss_dssp             SS----S--HHHHHHHHHHHH--TT-EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHHHHHHHHHCTT-SS--EEEB
T ss_pred             CC----CCchhhHHHHHHHHH--cCCcEEEEEecccccHhhhhccCCcccCHHHHHHHHHHHHHHHHHHcCCCcCceEEE
Confidence            63    344433333333333  378999999999951  1     1122222    22222222    23   368999


Q ss_pred             ecCCC--CCHHHHHHHHHHHHHhh
Q 030225          135 SAKSA--HNVNELFYEIAKRLAEV  156 (181)
Q Consensus       135 Sa~~~--~gi~~~~~~l~~~~~~~  156 (181)
                      |+.+-  .++..+.+.|...+...
T Consensus       197 S~~dl~~yDFp~L~~tL~~dLp~~  220 (376)
T PF05049_consen  197 SSFDLSKYDFPKLEETLEKDLPAH  220 (376)
T ss_dssp             -TTTTTSTTHHHHHHHHHHHS-GG
T ss_pred             eCCCcccCChHHHHHHHHHHhHHH
Confidence            98864  56888888887766554

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.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=98.93  E-value=7.6e-09  Score=74.49  Aligned_cols=130  Identities=16%  Similarity=0.156  Sum_probs=82.7

Q ss_pred             CchhHHHHHHhhC----------------CCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            3 TGKTSLVLRFVKG----------------QFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         3 ~GKttLl~~l~~~----------------~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      =|||||..++...                +.+++  ..-|+++....+.++-.+-++-..|+|||..|-.+.-.-..+.|
T Consensus        23 HGKTTLtaAit~~la~~~~~~~~~y~~id~aPeE--k~rGITIntahveyet~~rhyahVDcPGHaDYvKNMItgAaqmD  100 (394)
T COG0050          23 HGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEE--KARGITINTAHVEYETANRHYAHVDCPGHADYVKNMITGAAQMD  100 (394)
T ss_pred             CchhhHHHHHHHHHHhhccccccchhhhccCchH--hhcCceeccceeEEecCCceEEeccCCChHHHHHHHhhhHHhcC
Confidence            4999999887531                11111  12355555555556555667789999999999877666667889


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCce-EEEEEeCCCCccccc---CCHHHHHHHHHHcCC-----eEEEEecC
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRK---VKNEEGELYAQENGL-----SFLETSAK  137 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivi~nK~D~~~~~~---~~~~~~~~~~~~~~~-----~~~~~Sa~  137 (181)
                      +.|+|++++|..- ...+..+...+.   -+.| ++++.||+|+.+..+   ..+.+.+.+..++++     |++..||.
T Consensus       101 gAILVVsA~dGpm-PqTrEHiLlarq---vGvp~ivvflnK~Dmvdd~ellelVemEvreLLs~y~f~gd~~Pii~gSal  176 (394)
T COG0050         101 GAILVVAATDGPM-PQTREHILLARQ---VGVPYIVVFLNKVDMVDDEELLELVEMEVRELLSEYGFPGDDTPIIRGSAL  176 (394)
T ss_pred             ccEEEEEcCCCCC-Ccchhhhhhhhh---cCCcEEEEEEecccccCcHHHHHHHHHHHHHHHHHcCCCCCCcceeechhh
Confidence            9999999998422 222222222222   2454 556689999987443   233456667777764     67777776


Q ss_pred             C
Q 030225          138 S  138 (181)
Q Consensus       138 ~  138 (181)
                      .
T Consensus       177 ~  177 (394)
T COG0050         177 K  177 (394)
T ss_pred             h
Confidence            4

>cd01856 YlqF YlqF

Probab=98.91  E-value=5.9e-09  Score=71.11  Aligned_cols=99  Identities=22%  Similarity=0.145  Sum_probs=65.2

Q ss_pred             CCChh-hhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHH
Q 030225           48 TAGQE-RYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE  126 (181)
Q Consensus        48 ~~G~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~  126 (181)
                      .||+. +........++++|++++|+|++++..... ..++..+     .++|.++++||+|+......  ....++.+.
T Consensus         2 ~~~~~~~~~~~~~~~i~~aD~il~v~D~~~~~~~~~-~~i~~~~-----~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~   73 (171)
T cd01856           2 FPGHMAKALRQIKEKLKLVDLVIEVRDARIPLSSRN-PLLEKIL-----GNKPRIIVLNKADLADPKKT--KKWLKYFES   73 (171)
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeccCccCcCC-hhhHhHh-----cCCCEEEEEehhhcCChHHH--HHHHHHHHh
Confidence            56765 333344667899999999999987543211 1122211     35789999999998532111  111233333


Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225          127 NGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       127 ~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      .+..++.+||+++.|++++.+.+.+.+.
T Consensus        74 ~~~~vi~iSa~~~~gi~~L~~~l~~~l~  101 (171)
T cd01856          74 KGEKVLFVNAKSGKGVKKLLKAAKKLLK  101 (171)
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHHH
Confidence            4567899999999999999999988763

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.

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=98.85  E-value=1.8e-07  Score=69.80  Aligned_cols=75  Identities=15%  Similarity=0.028  Sum_probs=47.1

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeE--EEEEEEE--------------CCeEEEEEEEeCCCh----hhhhccch
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAF--FTQVLSL--------------NEVTIKFDIWDTAGQ----ERYHSLAP   59 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~--~~~~~~~--------------~~~~~~~~i~D~~G~----~~~~~~~~   59 (181)
                      ||||||||.|++...... ..| |..+++-  ....+..              .-....+.++|++|.    ..-+.+-.
T Consensus        11 PNVGKSTlFnAlT~~~a~~aNY-PF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~GAs~GeGLGN   89 (372)
T COG0012          11 PNVGKSTLFNALTKAGAEIANY-PFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKGASKGEGLGN   89 (372)
T ss_pred             CCCcHHHHHHHHHcCCccccCC-CcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCCcccCCCcch
Confidence            899999999999987643 233 3222111  1111111              113467899999885    33444555


Q ss_pred             hh---ccCCcEEEEEEECCC
Q 030225           60 MY---YRGAAAAVVVYDITS   76 (181)
Q Consensus        60 ~~---~~~~d~~i~v~d~~~   76 (181)
                      .|   ++++|+++.|+|+.+
T Consensus        90 kFL~~IRevdaI~hVVr~f~  109 (372)
T COG0012          90 KFLDNIREVDAIIHVVRCFG  109 (372)
T ss_pred             HHHHhhhhcCeEEEEEEecC
Confidence            55   578999999999873

>cd01858 NGP_1 NGP-1

Probab=98.85  E-value=1.8e-08  Score=67.76  Aligned_cols=89  Identities=12%  Similarity=0.154  Sum_probs=57.7

Q ss_pred             hccCCcEEEEEEECCChhH--HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCC
Q 030225           61 YYRGAAAAVVVYDITSMDS--FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKS  138 (181)
Q Consensus        61 ~~~~~d~~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  138 (181)
                      .++++|++++|+|+.++..  ...+.+++.   .. ..++|+++++||+|+...... ......+.+.+....+.+||++
T Consensus         5 ~l~~aD~il~VvD~~~p~~~~~~~i~~~l~---~~-~~~~p~ilVlNKiDl~~~~~~-~~~~~~~~~~~~~~~~~iSa~~   79 (157)
T cd01858           5 VIDSSDVVIQVLDARDPMGTRCKHVEEYLK---KE-KPHKHLIFVLNKCDLVPTWVT-ARWVKILSKEYPTIAFHASINN   79 (157)
T ss_pred             hhhhCCEEEEEEECCCCccccCHHHHHHHH---hc-cCCCCEEEEEEchhcCCHHHH-HHHHHHHhcCCcEEEEEeeccc
Confidence            4678999999999998632  222333332   22 345899999999998542211 1112222222223357899999


Q ss_pred             CCCHHHHHHHHHHHHH
Q 030225          139 AHNVNELFYEIAKRLA  154 (181)
Q Consensus       139 ~~gi~~~~~~l~~~~~  154 (181)
                      +.|++++++.|.+.+.
T Consensus        80 ~~~~~~L~~~l~~~~~   95 (157)
T cd01858          80 PFGKGSLIQLLRQFSK   95 (157)
T ss_pred             cccHHHHHHHHHHHHh
Confidence            9999999999977543

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.

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=98.83  E-value=1.4e-08  Score=80.28  Aligned_cols=104  Identities=21%  Similarity=0.230  Sum_probs=72.1

Q ss_pred             CCchhHHHHHHhhCCCCCccccc-----------------eeeeEEEEE---EEECCeEEEEEEEeCCChhhhhccchhh
Q 030225            2 GTGKTSLVLRFVKGQFFDFQEST-----------------IGAAFFTQV---LSLNEVTIKFDIWDTAGQERYHSLAPMY   61 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t-----------------~~~~~~~~~---~~~~~~~~~~~i~D~~G~~~~~~~~~~~   61 (181)
                      +.|||+|+..|..+..+.....+                 .++.....+   -..++..+-+++.|||||.+|.....+.
T Consensus       138 hhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nilDTPGHVnF~DE~ta~  217 (971)
T KOG0468|consen  138 HHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNILDTPGHVNFSDETTAS  217 (971)
T ss_pred             ccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeeecCCCcccchHHHHHH
Confidence            57999999999876554332211                 111111111   1235667889999999999999999999


Q ss_pred             ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCC
Q 030225           62 YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL  109 (181)
Q Consensus        62 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~  109 (181)
                      ++.+|++++++|+.+.-.+.. .+.++..   ...+.|+++++||.|.
T Consensus       218 l~~sDgvVlvvDv~EGVmlnt-Er~ikha---iq~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  218 LRLSDGVVLVVDVAEGVMLNT-ERIIKHA---IQNRLPIVVVINKVDR  261 (971)
T ss_pred             hhhcceEEEEEEcccCceeeH-HHHHHHH---HhccCcEEEEEehhHH
Confidence            999999999999987655432 2222222   2357899999999996

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=98.82  E-value=7.2e-08  Score=70.66  Aligned_cols=130  Identities=17%  Similarity=0.185  Sum_probs=67.9

Q ss_pred             CCCchhHHHHHHhhCCCCCcc----------ccceeeeEEEEEEEECCeEEEEEEEeCCChh------------------
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ----------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE------------------   52 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~----------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~------------------   52 (181)
                      +|+|||||+|.|++.......          .++..+......+.-++..+.+.++||||-.                  
T Consensus        13 sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~~~~~~I~~yI~~   92 (281)
T PF00735_consen   13 SGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNSDCWEPIVDYIES   92 (281)
T ss_dssp             TTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHCHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccchhhhHHHHHHHHH
Confidence            699999999999986554332          1233344444455667888999999999921                  


Q ss_pred             hhhcc-------chhhc--cCCcEEEEEEECCChhHHHHH-HHHHHHHHHhCCCCceEEEEEeCCCCccccc--CCHHHH
Q 030225           53 RYHSL-------APMYY--RGAAAAVVVYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDLEEKRK--VKNEEG  120 (181)
Q Consensus        53 ~~~~~-------~~~~~--~~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~--~~~~~~  120 (181)
                      .|...       .+..+  ...|+++|.++++... +..+ ...++.+    ...+++|-|+.|+|.....+  ......
T Consensus        93 qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~-L~~~Di~~mk~L----s~~vNvIPvIaKaD~lt~~el~~~k~~i  167 (281)
T PF00735_consen   93 QFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHG-LKPLDIEFMKRL----SKRVNVIPVIAKADTLTPEELQAFKQRI  167 (281)
T ss_dssp             HHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSS-S-HHHHHHHHHH----TTTSEEEEEESTGGGS-HHHHHHHHHHH
T ss_pred             HHHHHHHHhhcccccCcCCCCcceEEEEEcCCCcc-chHHHHHHHHHh----cccccEEeEEecccccCHHHHHHHHHHH
Confidence            01000       00011  2468999999987521 1111 1223333    24578999999999754322  223334


Q ss_pred             HHHHHHcCCeEEEEe
Q 030225          121 ELYAQENGLSFLETS  135 (181)
Q Consensus       121 ~~~~~~~~~~~~~~S  135 (181)
                      ..-++.+++.++...
T Consensus       168 ~~~l~~~~I~~f~f~  182 (281)
T PF00735_consen  168 REDLEENNIKIFDFP  182 (281)
T ss_dssp             HHHHHHTT--S----
T ss_pred             HHHHHHcCceeeccc
Confidence            455666777766543

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.79  E-value=4.4e-08  Score=71.85  Aligned_cols=101  Identities=21%  Similarity=0.201  Sum_probs=67.3

Q ss_pred             CCChh-hhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHH
Q 030225           48 TAGQE-RYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE  126 (181)
Q Consensus        48 ~~G~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~  126 (181)
                      .|||+ .........++.+|++++|+|+.++.+...  .++....    .++|+++|+||+|+.+....  .....+.+.
T Consensus         4 fpgHm~k~~~~~~~~l~~aDvVl~V~Dar~p~~~~~--~~i~~~l----~~kp~IiVlNK~DL~~~~~~--~~~~~~~~~   75 (276)
T TIGR03596         4 FPGHMAKARREIKEKLKLVDVVIEVLDARIPLSSRN--PMIDEIR----GNKPRLIVLNKADLADPAVT--KQWLKYFEE   75 (276)
T ss_pred             ChHHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCCCC--hhHHHHH----CCCCEEEEEEccccCCHHHH--HHHHHHHHH
Confidence            57876 233344667899999999999987644221  1111111    25799999999998532111  111222333


Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          127 NGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       127 ~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      .+.+++.+||+++.|++++++.+.+.+.+.
T Consensus        76 ~~~~vi~iSa~~~~gi~~L~~~i~~~~~~~  105 (276)
T TIGR03596        76 KGIKALAINAKKGKGVKKIIKAAKKLLKEK  105 (276)
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHHHHh
Confidence            456789999999999999999998877654

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.

>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=98.78  E-value=4.3e-08  Score=75.32  Aligned_cols=115  Identities=16%  Similarity=0.214  Sum_probs=83.1

Q ss_pred             eEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCCh----------hHHHHHHHHHHHHHHh-CCCCceEEEEEeCC
Q 030225           39 VTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSM----------DSFERAKKWVQELQRQ-GNPNLIMFLVANKV  107 (181)
Q Consensus        39 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~~~~~-~~~~~p~ivi~nK~  107 (181)
                      ....+.++|++|+...+.-|..+|.+++++|||+++++-          ..+.+....+..+... ...+.|++|++||.
T Consensus       234 ~~~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~  313 (389)
T PF00503_consen  234 GSRKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKI  313 (389)
T ss_dssp             TTEEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-H
T ss_pred             cccccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecH
Confidence            445778999999999999999999999999999998752          2355555566666553 22588999999999


Q ss_pred             CCcc-----------------cc-cCCHHHHHHHHHHc------------CCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225          108 DLEE-----------------KR-KVKNEEGELYAQEN------------GLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       108 D~~~-----------------~~-~~~~~~~~~~~~~~------------~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      |+-.                 .. +...+.+..|+...            .+.++.++|.+.+.++.+|+.+.+.+
T Consensus       314 D~f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~h~t~a~d~~~~~~v~~~v~~~i  389 (389)
T PF00503_consen  314 DLFEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPSRRIYVHFTCATDTENIRKVFNAVKDII  389 (389)
T ss_dssp             HHHHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTCS-EEEEEESTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCCCCcceEEEEeeecccHHHHHHHHHhcCcC
Confidence            9621                 01 13445566655542            12467889999999999999887653

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 ....

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.78  E-value=4.9e-08  Score=65.51  Aligned_cols=85  Identities=14%  Similarity=0.045  Sum_probs=55.3

Q ss_pred             cEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHH
Q 030225           66 AAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNEL  145 (181)
Q Consensus        66 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~  145 (181)
                      |++++|+|+.++.+...  .++.. ......++|+++++||+|+....++ ......+....+..++.+||+++.|++++
T Consensus         1 Dvvl~VvD~~~p~~~~~--~~i~~-~~~~~~~~p~IiVlNK~Dl~~~~~~-~~~~~~~~~~~~~~ii~vSa~~~~gi~~L   76 (155)
T cd01849           1 DVILEVLDARDPLGTRS--PDIER-VLIKEKGKKLILVLNKADLVPKEVL-RKWLAYLRHSYPTIPFKISATNGQGIEKK   76 (155)
T ss_pred             CEEEEEEeccCCccccC--HHHHH-HHHhcCCCCEEEEEechhcCCHHHH-HHHHHHHHhhCCceEEEEeccCCcChhhH
Confidence            78999999988755432  23321 1112256899999999998542211 01111232233556899999999999999


Q ss_pred             HHHHHHHHH
Q 030225          146 FYEIAKRLA  154 (181)
Q Consensus       146 ~~~l~~~~~  154 (181)
                      ++.+.+...
T Consensus        77 ~~~i~~~~~   85 (155)
T cd01849          77 ESAFTKQTN   85 (155)
T ss_pred             HHHHHHHhH
Confidence            999987643

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.69  E-value=7.7e-08  Score=70.96  Aligned_cols=101  Identities=21%  Similarity=0.190  Sum_probs=67.8

Q ss_pred             CCChhh-hhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHH
Q 030225           48 TAGQER-YHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE  126 (181)
Q Consensus        48 ~~G~~~-~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~  126 (181)
                      .|||+. -.......++.+|++++|+|+.++.+...  .++....    .++|.++|+||+|+.+...  ......+..+
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            788863 23334667889999999999987644221  1122221    2578999999999853211  1112222334


Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          127 NGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       127 ~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      .+.+++.+||+++.|++.+++.+.+.+.+.
T Consensus        79 ~~~~vi~vSa~~~~gi~~L~~~l~~~l~~~  108 (287)
T PRK09563         79 QGIKALAINAKKGQGVKKILKAAKKLLKEK  108 (287)
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHHHHH
Confidence            467889999999999999999998877654

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=98.68  E-value=1.9e-07  Score=74.61  Aligned_cols=109  Identities=10%  Similarity=0.094  Sum_probs=61.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeE-EEEEEEECCeEEEEEEEeCCChhhhh-------cc---chhhcc--CCcE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAF-FTQVLSLNEVTIKFDIWDTAGQERYH-------SL---APMYYR--GAAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~---~~~~~~--~~d~   67 (181)
                      ||+||||++|.|++...........+++. .......++  ..+.++||||-....       .+   ...++.  .+|+
T Consensus       127 TGVGKSSLINSILGekvf~vss~~~~TTr~~ei~~~idG--~~L~VIDTPGL~dt~~dq~~neeILk~Ik~~Lsk~gpDV  204 (763)
T TIGR00993       127 SGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQG--VKIRVIDTPGLKSSASDQSKNEKILSSVKKFIKKNPPDI  204 (763)
T ss_pred             CCCCHHHHHHHHhccccccccCCCCCceEEEEEEEEECC--ceEEEEECCCCCccccchHHHHHHHHHHHHHHhcCCCCE
Confidence            69999999999998764332211112222 122223333  468899999964321       11   122333  5899


Q ss_pred             EEEEEECCChhHHHHHHHHHHHHHHhCCC--CceEEEEEeCCCCcc
Q 030225           68 AVVVYDITSMDSFERAKKWVQELQRQGNP--NLIMFLVANKVDLEE  111 (181)
Q Consensus        68 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~p~ivi~nK~D~~~  111 (181)
                      ++||..+.......+-..+++.+......  -..+||+.|+.|...
T Consensus       205 VLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       205 VLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             EEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence            99998875332221223445555443321  134788899999753

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.

>smart00053 DYNc Dynamin, GTPase

Probab=98.68  E-value=2.2e-07  Score=66.44  Aligned_cols=68  Identities=15%  Similarity=0.154  Sum_probs=42.7

Q ss_pred             EEEEEEeCCChhh-------------hhccchhhcc-CCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeC
Q 030225           41 IKFDIWDTAGQER-------------YHSLAPMYYR-GAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANK  106 (181)
Q Consensus        41 ~~~~i~D~~G~~~-------------~~~~~~~~~~-~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK  106 (181)
                      ..|.++|+||-..             ...+...|++ ..+++++|+|+...-.-.......+.+.   ..+.|+++|+||
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            4688999999631             1224556677 4569999998764222112222223332   246899999999


Q ss_pred             CCCcc
Q 030225          107 VDLEE  111 (181)
Q Consensus       107 ~D~~~  111 (181)
                      .|..+
T Consensus       202 ~D~~~  206 (240)
T smart00053      202 LDLMD  206 (240)
T ss_pred             CCCCC
Confidence            99854

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.68  E-value=9.2e-08  Score=63.15  Aligned_cols=76  Identities=20%  Similarity=0.250  Sum_probs=52.2

Q ss_pred             hhccCCcEEEEEEECCChhHHH--HHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecC
Q 030225           60 MYYRGAAAAVVVYDITSMDSFE--RAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAK  137 (181)
Q Consensus        60 ~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  137 (181)
                      ..++++|++++|+|+.++.+..  .+.+|+...    ..++|+++++||+|+.....  ......+.+..+..++++||+
T Consensus         7 ~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~----~~~k~~iivlNK~DL~~~~~--~~~~~~~~~~~~~~ii~iSa~   80 (141)
T cd01857           7 RVVERSDIVVQIVDARNPLLFRPPDLERYVKEV----DPRKKNILLLNKADLLTEEQ--RKAWAEYFKKEGIVVVFFSAL   80 (141)
T ss_pred             HHHhhCCEEEEEEEccCCcccCCHHHHHHHHhc----cCCCcEEEEEechhcCCHHH--HHHHHHHHHhcCCeEEEEEec
Confidence            4578899999999998876533  334444332    24689999999999854222  123344555567889999999


Q ss_pred             CCCC
Q 030225          138 SAHN  141 (181)
Q Consensus       138 ~~~g  141 (181)
                      ++.+
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.

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=98.67  E-value=8.9e-07  Score=65.86  Aligned_cols=135  Identities=13%  Similarity=0.148  Sum_probs=82.9

Q ss_pred             CCCchhHHHHHHhhCCCCCc----------cccceeeeEEEEEEEECCeEEEEEEEeCCChhhh-------hc-------
Q 030225            1 MGTGKTSLVLRFVKGQFFDF----------QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY-------HS-------   56 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~----------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~-------   56 (181)
                      +|+|||||+|.|++......          ..+++........+.-++..+.+.++||||--++       ..       
T Consensus        32 sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~~we~I~~yI~~  111 (373)
T COG5019          32 SGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSKCWEPIVDYIDD  111 (373)
T ss_pred             CCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccccccccccHHHHHHHHHH
Confidence            68999999999998644322          2355556666667777888999999999993111       00       


Q ss_pred             ------------cchhhcc--CCcEEEEEEECCChhHHHHH-HHHHHHHHHhCCCCceEEEEEeCCCCcccc--cCCHHH
Q 030225           57 ------------LAPMYYR--GAAAAVVVYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDLEEKR--KVKNEE  119 (181)
Q Consensus        57 ------------~~~~~~~--~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~--~~~~~~  119 (181)
                                  .+...+.  .+|+++|.+.++. ..+..+ ...++.+.    ..+.++-|+-|+|.....  ....+.
T Consensus       112 q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptg-h~l~~~DIe~Mk~ls----~~vNlIPVI~KaD~lT~~El~~~K~~  186 (373)
T COG5019         112 QFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTG-HGLKPLDIEAMKRLS----KRVNLIPVIAKADTLTDDELAEFKER  186 (373)
T ss_pred             HHHHHHHHhhccccccccccCceEEEEEEecCCC-CCCCHHHHHHHHHHh----cccCeeeeeeccccCCHHHHHHHHHH
Confidence                        0010122  3688888888764 333322 22333332    345688888899985432  333445


Q ss_pred             HHHHHHHcCCeEEEEecCCCCCH
Q 030225          120 GELYAQENGLSFLETSAKSAHNV  142 (181)
Q Consensus       120 ~~~~~~~~~~~~~~~Sa~~~~gi  142 (181)
                      ..+.+..+++++|.  -.+.+.-
T Consensus       187 I~~~i~~~nI~vf~--pyd~e~~  207 (373)
T COG5019         187 IREDLEQYNIPVFD--PYDPEDD  207 (373)
T ss_pred             HHHHHHHhCCceeC--CCCcccc
Confidence            56677778888875  2444433

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.66  E-value=2.1e-07  Score=65.43  Aligned_cols=152  Identities=23%  Similarity=0.338  Sum_probs=90.3

Q ss_pred             CCchhHHHHHHhhCCCCCccccceeeeEEEE--EEEECCeEEEEEEEeCCChhhhhc---cchhhccCCcEEEEEEECCC
Q 030225            2 GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQ--VLSLNEVTIKFDIWDTAGQERYHS---LAPMYYRGAAAAVVVYDITS   76 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~--~~~~~~~~~~~~i~D~~G~~~~~~---~~~~~~~~~d~~i~v~d~~~   76 (181)
                      .|||||+-........+.   .|....-..+  .-.+....+.|.+||.||+..+..   -....++.+-++|||+|+.|
T Consensus        37 RsGKsSI~KVVFhkMsPn---eTlflESTski~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gALifvIDaQd  113 (347)
T KOG3887|consen   37 RSGKSSIQKVVFHKMSPN---ETLFLESTSKITRDHISNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVGALIFVIDAQD  113 (347)
T ss_pred             ccCcchhhheeeeccCCC---ceeEeeccCcccHhhhhhhhcceEEeecCCccccCCCccCHHHHHhccCeEEEEEechH
Confidence            489999865544433222   1221111111  112233557789999999976543   23567899999999999875


Q ss_pred             hhHHHHHHHHHHHHHH--hCCCCceEEEEEeCCCCcccc-------cCCHHHHHHHHHHcC-----CeEEEEecCCCCCH
Q 030225           77 MDSFERAKKWVQELQR--QGNPNLIMFLVANKVDLEEKR-------KVKNEEGELYAQENG-----LSFLETSAKSAHNV  142 (181)
Q Consensus        77 ~~s~~~~~~~~~~~~~--~~~~~~p~ivi~nK~D~~~~~-------~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~gi  142 (181)
                       +-.+.+.++...+.+  ...++..+=+.+.|.|.....       .+...... -..+.|     +.++-+|..+ ..|
T Consensus       114 -dy~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kietqrdI~qr~~d-~l~d~gle~v~vsf~LTSIyD-HSI  190 (347)
T KOG3887|consen  114 -DYMEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIETQRDIHQRTND-ELADAGLEKVQVSFYLTSIYD-HSI  190 (347)
T ss_pred             -HHHHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhhhhhhHHHHHHHhhH-HHHhhhhccceEEEEEeeecc-hHH
Confidence             334445554444443  234788888999999964321       11111111 122222     3567777777 559


Q ss_pred             HHHHHHHHHHHHhhCCC
Q 030225          143 NELFYEIAKRLAEVNPS  159 (181)
Q Consensus       143 ~~~~~~l~~~~~~~~~~  159 (181)
                      -|.|..+++++....|.
T Consensus       191 fEAFSkvVQkLipqLpt  207 (347)
T KOG3887|consen  191 FEAFSKVVQKLIPQLPT  207 (347)
T ss_pred             HHHHHHHHHHHhhhchh
Confidence            99999998888776664

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=98.64  E-value=2.1e-07  Score=68.43  Aligned_cols=130  Identities=18%  Similarity=0.156  Sum_probs=82.8

Q ss_pred             CchhHHHHHHhh---C-------------CCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            3 TGKTSLVLRFVK---G-------------QFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         3 ~GKttLl~~l~~---~-------------~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      =|||||-.++..   .             +.+++.  .-|+++....+.+.-.+-++-=.|||||.+|-.+.-.-..+-|
T Consensus        65 HGKTTLTaAITkila~~g~A~~~kydeID~APEEk--aRGITIn~aHveYeTa~RhYaH~DCPGHADYIKNMItGaaqMD  142 (449)
T KOG0460|consen   65 HGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEK--ARGITINAAHVEYETAKRHYAHTDCPGHADYIKNMITGAAQMD  142 (449)
T ss_pred             CCchhHHHHHHHHHHhccccccccHhhhhcChhhh--hccceEeeeeeeeeccccccccCCCCchHHHHHHhhcCccccC
Confidence            399999887752   1             111222  2244555555555555556668899999999877666667789


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccc---cCCHHHHHHHHHHcC-----CeEEEEecC
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR---KVKNEEGELYAQENG-----LSFLETSAK  137 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~---~~~~~~~~~~~~~~~-----~~~~~~Sa~  137 (181)
                      +.|+|+.++|.. +...++.+-..+...  -..+++.+||.|+.+..   ++.+-+++++..+++     +|++.-||+
T Consensus       143 GaILVVaatDG~-MPQTrEHlLLArQVG--V~~ivvfiNKvD~V~d~e~leLVEmE~RElLse~gf~Gd~~PvI~GSAL  218 (449)
T KOG0460|consen  143 GAILVVAATDGP-MPQTREHLLLARQVG--VKHIVVFINKVDLVDDPEMLELVEMEIRELLSEFGFDGDNTPVIRGSAL  218 (449)
T ss_pred             ceEEEEEcCCCC-CcchHHHHHHHHHcC--CceEEEEEecccccCCHHHHHHHHHHHHHHHHHcCCCCCCCCeeecchh
Confidence            999999999843 333444443333332  23477779999997433   333445667777776     478877765

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.64  E-value=1e-07  Score=74.72  Aligned_cols=108  Identities=19%  Similarity=0.151  Sum_probs=74.3

Q ss_pred             CchhHHHHHHhhCCCCCccc----------------cceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            3 TGKTSLVLRFVKGQFFDFQE----------------STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         3 ~GKttLl~~l~~~~~~~~~~----------------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      +|||||-++.+-...-....                ..-|++..+.-..+.+.+++++++|||||..|.......++-.|
T Consensus        50 sgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~w~~~~iNiIDTPGHvDFT~EVeRALrVlD  129 (721)
T KOG0465|consen   50 AGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFTWRDYRINIIDTPGHVDFTFEVERALRVLD  129 (721)
T ss_pred             cCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeeeeccceeEEecCCCceeEEEEehhhhhhcc
Confidence            79999999876422211000                11244455555555566889999999999999998899999999


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK  114 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~  114 (181)
                      +.++++|...+---+...-|. ++.++   ++|.+..+||.|..+...
T Consensus       130 GaVlvl~aV~GVqsQt~tV~r-Q~~ry---~vP~i~FiNKmDRmGa~~  173 (721)
T KOG0465|consen  130 GAVLVLDAVAGVESQTETVWR-QMKRY---NVPRICFINKMDRMGASP  173 (721)
T ss_pred             CeEEEEEcccceehhhHHHHH-HHHhc---CCCeEEEEehhhhcCCCh
Confidence            999999988543333333443 33333   689999999999866443

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=98.63  E-value=8.2e-08  Score=72.43  Aligned_cols=136  Identities=16%  Similarity=0.132  Sum_probs=92.1

Q ss_pred             CCchhHHHHHHhhCCCC------Cccc----------cceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCC
Q 030225            2 GTGKTSLVLRFVKGQFF------DFQE----------STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGA   65 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~------~~~~----------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   65 (181)
                      .+||||--.|++-....      ...-          ..-|+++.+.-+++++..++++++||||+..|+.....+++--
T Consensus        47 dagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fdwkg~rinlidtpghvdf~leverclrvl  126 (753)
T KOG0464|consen   47 DAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFDWKGHRINLIDTPGHVDFRLEVERCLRVL  126 (753)
T ss_pred             cCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeecccccceEeeecCCCcceEEEEHHHHHHHh
Confidence            47999999998631110      0000          1236778888889999999999999999999999999999999


Q ss_pred             cEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCe--EEEEecCCCCCHH
Q 030225           66 AAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLS--FLETSAKSAHNVN  143 (181)
Q Consensus        66 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~--~~~~Sa~~~~gi~  143 (181)
                      |+++.|||.+..-.-+.+.-|.+.    ...+.|-..++||+|......  +......-.+.+..  .+.+..-...|+.
T Consensus       127 dgavav~dasagve~qtltvwrqa----dk~~ip~~~finkmdk~~anf--e~avdsi~ekl~ak~l~l~lpi~eak~fn  200 (753)
T KOG0464|consen  127 DGAVAVFDASAGVEAQTLTVWRQA----DKFKIPAHCFINKMDKLAANF--ENAVDSIEEKLGAKALKLQLPIGEAKGFN  200 (753)
T ss_pred             cCeEEEEeccCCcccceeeeehhc----cccCCchhhhhhhhhhhhhhh--hhHHHHHHHHhCCceEEEEeccccccccc
Confidence            999999999976555555666433    235788889999999754222  12223333445543  2334444455553

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.63  E-value=3.2e-06  Score=60.04  Aligned_cols=145  Identities=20%  Similarity=0.177  Sum_probs=86.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc-------cchhhccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS-------LAPMYYRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-------~~~~~~~~~d~~i~v~d   73 (181)
                      |.+||||||..+.........-..++.+...-.+.+++.  .+++.|.||--+-.+       ..-+..+.+|+++.|.|
T Consensus        71 PSVGKStlLs~iT~T~SeaA~yeFTTLtcIpGvi~y~ga--~IQllDLPGIieGAsqgkGRGRQviavArtaDlilMvLD  148 (364)
T KOG1486|consen   71 PSVGKSTLLSKITSTHSEAASYEFTTLTCIPGVIHYNGA--NIQLLDLPGIIEGASQGKGRGRQVIAVARTADLILMVLD  148 (364)
T ss_pred             CCccHHHHHHHhhcchhhhhceeeeEEEeecceEEecCc--eEEEecCcccccccccCCCCCceEEEEeecccEEEEEec
Confidence            789999999988764432221122233333444555555  466999999432111       12344678999999999


Q ss_pred             CCChhHHHH-HHHHHHHHHHhCC---C-----------------------------------------------------
Q 030225           74 ITSMDSFER-AKKWVQELQRQGN---P-----------------------------------------------------   96 (181)
Q Consensus        74 ~~~~~s~~~-~~~~~~~~~~~~~---~-----------------------------------------------------   96 (181)
                      ++..+.-.+ +.+.+..+--.-.   |                                                     
T Consensus       149 atk~e~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~~lT~~~ek~i~~ILheykI~Naevl~ReD~t~Ddf  228 (364)
T KOG1486|consen  149 ATKSEDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLTHCDEKLIYTILHEYKIHNAEVLFREDCTVDDF  228 (364)
T ss_pred             CCcchhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeeccccccHHHHHHHHHHHeeccceEEEecCCChHHH
Confidence            997655442 3444444321101   1                                                     


Q ss_pred             ---------CceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           97 ---------NLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        97 ---------~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                               -.+.+.+-||+|.     ++.++..++++.-+  -+-+|+...-|++.+++.+-+.+.
T Consensus       229 IDvi~gnr~Y~~ClYvYnKID~-----vs~eevdrlAr~Pn--svViSC~m~lnld~lle~iWe~l~  288 (364)
T KOG1486|consen  229 IDVIEGNRVYIKCLYVYNKIDQ-----VSIEEVDRLARQPN--SVVISCNMKLNLDRLLERIWEELN  288 (364)
T ss_pred             HHHHhccceEEEEEEEeeccce-----ecHHHHHHHhcCCC--cEEEEeccccCHHHHHHHHHHHhc
Confidence                     1444555566653     55666667665443  344677888889988888877553

>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=98.61  E-value=3.1e-08  Score=70.57  Aligned_cols=102  Identities=21%  Similarity=0.148  Sum_probs=59.2

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHH
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG  120 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~  120 (181)
                      +.+.|++|.|--...   -....-+|.+++|.-+.-.+..+.++.=+.++        .-++++||.|+...... ..+.
T Consensus       122 ~D~IiiETVGvGQsE---~~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimEi--------aDi~vVNKaD~~gA~~~-~~~l  189 (266)
T PF03308_consen  122 FDVIIIETVGVGQSE---VDIADMADTVVLVLVPGLGDEIQAIKAGIMEI--------ADIFVVNKADRPGADRT-VRDL  189 (266)
T ss_dssp             -SEEEEEEESSSTHH---HHHHTTSSEEEEEEESSTCCCCCTB-TTHHHH---------SEEEEE--SHHHHHHH-HHHH
T ss_pred             CCEEEEeCCCCCccH---HHHHHhcCeEEEEecCCCccHHHHHhhhhhhh--------ccEEEEeCCChHHHHHH-HHHH
Confidence            567788887632222   12344589999999988766654433322222        45788999996443221 1121


Q ss_pred             HH---HHHH----cCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225          121 EL---YAQE----NGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       121 ~~---~~~~----~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      ..   +...    +..+++.+||.++.|++++.+.|.+...
T Consensus       190 ~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~~  230 (266)
T PF03308_consen  190 RSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHRD  230 (266)
T ss_dssp             HHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            21   1111    2358999999999999999999987433

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.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=98.61  E-value=5.1e-07  Score=65.47  Aligned_cols=107  Identities=20%  Similarity=0.122  Sum_probs=65.0

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCH--
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKN--  117 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~--  117 (181)
                      .+.+.|++|.|--.....   ...-+|.+++|.=..-.+..+.++.=+..+        --++++||.|..+...--.  
T Consensus       143 G~DvIIVETVGvGQsev~---I~~~aDt~~~v~~pg~GD~~Q~iK~GimEi--------aDi~vINKaD~~~A~~a~r~l  211 (323)
T COG1703         143 GYDVIIVETVGVGQSEVD---IANMADTFLVVMIPGAGDDLQGIKAGIMEI--------ADIIVINKADRKGAEKAAREL  211 (323)
T ss_pred             CCCEEEEEecCCCcchhH---HhhhcceEEEEecCCCCcHHHHHHhhhhhh--------hheeeEeccChhhHHHHHHHH
Confidence            356788888875433322   233478888887766666555444322222        3578899999654211100  


Q ss_pred             HHHHHHH----HH--cCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225          118 EEGELYA----QE--NGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       118 ~~~~~~~----~~--~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ..+....    ..  +..+++.+||.+|+|+.++++.+.+...-..
T Consensus       212 ~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~~  257 (323)
T COG1703         212 RSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFLT  257 (323)
T ss_pred             HHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHHH
Confidence            1111111    11  2357999999999999999999988665543

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.61  E-value=1.4e-06  Score=65.20  Aligned_cols=148  Identities=14%  Similarity=0.172  Sum_probs=87.1

Q ss_pred             CCCchhHHHHHHhhCCCCCc---------cccceeeeEEEEEEEECCeEEEEEEEeCCChhh-------hh---------
Q 030225            1 MGTGKTSLVLRFVKGQFFDF---------QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER-------YH---------   55 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~---------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~---------   55 (181)
                      +|.|||||+|.|+...+...         ...+..+......+.-++..++++++||||--+       |.         
T Consensus        30 sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~w~pi~~yi~~q  109 (366)
T KOG2655|consen   30 SGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNCWRPIVNYIDSQ  109 (366)
T ss_pred             CCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccccccchhhhHHHHHH
Confidence            68999999999998744322         223445555556666678889999999999211       11         


Q ss_pred             ---------ccchhhcc--CCcEEEEEEECCChhHHHHHH-HHHHHHHHhCCCCceEEEEEeCCCCcccc--cCCHHHHH
Q 030225           56 ---------SLAPMYYR--GAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR--KVKNEEGE  121 (181)
Q Consensus        56 ---------~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~~--~~~~~~~~  121 (181)
                               .+.+..+.  .+++++|.+..+.. .+..+. ..++.+.    ..+.++-|+-|+|.....  ........
T Consensus       110 ~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~gh-gL~p~Di~~Mk~l~----~~vNiIPVI~KaD~lT~~El~~~K~~I~  184 (366)
T KOG2655|consen  110 FDQYLDEESRLNRSKIKDNRVHCCLYFISPTGH-GLKPLDIEFMKKLS----KKVNLIPVIAKADTLTKDELNQFKKRIR  184 (366)
T ss_pred             HHHHHhhhccCCcccccCCceEEEEEEeCCCCC-CCcHhhHHHHHHHh----ccccccceeeccccCCHHHHHHHHHHHH
Confidence                     11112233  57889999887742 222221 2222232    456688888899975432  33344556


Q ss_pred             HHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       122 ~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..++++++....-..   ++.+-...+.+...
T Consensus       185 ~~i~~~nI~vf~fp~~~~---d~~~~~~~~~l~~~  216 (366)
T KOG2655|consen  185 QDIEEHNIKVFDFPTDES---DEELKEEEQDLKSS  216 (366)
T ss_pred             HHHHHcCcceecCCCCcc---hhhhHHHHHHHhhc
Confidence            667777888776655443   33343334444443

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.54  E-value=1.3e-07  Score=62.40  Aligned_cols=47  Identities=23%  Similarity=0.264  Sum_probs=34.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCCh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ   51 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   51 (181)
                      ||+|||||+|+|.+..... .....|.+.....+.+++   .+.+|||||-
T Consensus        92 ~~vGKstlin~l~~~~~~~-~~~~~~~~~~~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          92 PNVGKSSLINALVGKKKVS-VSATPGKTKHFQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             CCCCHHHHHHHHhCCCcee-eCCCCCcccceEEEEeCC---CEEEEECCCc
Confidence            7999999999999877543 334455555555666654   4679999994

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.

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=98.53  E-value=6.6e-08  Score=69.18  Aligned_cols=143  Identities=17%  Similarity=0.144  Sum_probs=79.3

Q ss_pred             CCCchhHHHHHHhhCCCCCcccc-ceeeeEEEEEEEECCeEEEEEEEeCCC----------hhhhhccchhhccCCcE--
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQES-TIGAAFFTQVLSLNEVTIKFDIWDTAG----------QERYHSLAPMYYRGAAA--   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~-t~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~~~~~~~d~--   67 (181)
                      +|+|||+|||.+........... ..|.+.....+.   .+-.+.+.|.||          ...+..+...|+.+-+-  
T Consensus       145 SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~---v~~~~~~vDlPG~~~a~y~~~~~~d~~~~t~~Y~leR~nLv  221 (320)
T KOG2486|consen  145 SNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFH---VGKSWYEVDLPGYGRAGYGFELPADWDKFTKSYLLERENLV  221 (320)
T ss_pred             CcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeee---ccceEEEEecCCcccccCCccCcchHhHhHHHHHHhhhhhh
Confidence            68999999999987554332222 455443333333   334678999999          12344445555544332  


Q ss_pred             -EEEEEECCChhHHHHHHH-HHHHHHHhCCCCceEEEEEeCCCCccc------ccCCHHHH--HHHHH---HcCCeEEEE
Q 030225           68 -AVVVYDITSMDSFERAKK-WVQELQRQGNPNLIMFLVANKVDLEEK------RKVKNEEG--ELYAQ---ENGLSFLET  134 (181)
Q Consensus        68 -~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~p~ivi~nK~D~~~~------~~~~~~~~--~~~~~---~~~~~~~~~  134 (181)
                       +++++|++-+  +.-... ..+.+ .  ..++|+.+|.||+|....      ++......  ..+.+   ....+.+.+
T Consensus       222 ~~FLLvd~sv~--i~~~D~~~i~~~-g--e~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~~l~~~~f~~~~Pw~~~  296 (320)
T KOG2486|consen  222 RVFLLVDASVP--IQPTDNPEIAWL-G--ENNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGLIRGVFLVDLPWIYV  296 (320)
T ss_pred             eeeeeeeccCC--CCCCChHHHHHH-h--hcCCCeEEeeehhhhhhhccccccCccccceeehhhccccceeccCCceee
Confidence             3334454422  111111 11222 2  258999999999997421      11111111  11111   123467789


Q ss_pred             ecCCCCCHHHHHHHHHH
Q 030225          135 SAKSAHNVNELFYEIAK  151 (181)
Q Consensus       135 Sa~~~~gi~~~~~~l~~  151 (181)
                      |+.++.|+.+++-.+.+
T Consensus       297 Ssvt~~Grd~Ll~~i~q  313 (320)
T KOG2486|consen  297 SSVTSLGRDLLLLHIAQ  313 (320)
T ss_pred             ecccccCceeeeeehhh
Confidence            99999999998776654

>PRK01889 GTPase RsgA; Reviewed

Probab=98.52  E-value=5.4e-07  Score=68.36  Aligned_cols=83  Identities=16%  Similarity=0.155  Sum_probs=57.9

Q ss_pred             ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHH-HcCCeEEEEecCCCC
Q 030225           62 YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQ-ENGLSFLETSAKSAH  140 (181)
Q Consensus        62 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~  140 (181)
                      ..++|.+++|+++..+-....+.+++..+...   +.|.++|+||+|+.+..+   +....+.. ..+.+++.+|++++.
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            57899999999996433344566666665444   456788999999964311   11122211 346789999999999


Q ss_pred             CHHHHHHHHH
Q 030225          141 NVNELFYEIA  150 (181)
Q Consensus       141 gi~~~~~~l~  150 (181)
                      |++++..+|.
T Consensus       184 gl~~L~~~L~  193 (356)
T PRK01889        184 GLDVLAAWLS  193 (356)
T ss_pred             cHHHHHHHhh
Confidence            9999999884

>PRK13796 GTPase YqeH; Provisional

Probab=98.51  E-value=9.9e-07  Score=67.19  Aligned_cols=92  Identities=30%  Similarity=0.380  Sum_probs=60.2

Q ss_pred             hhhccchhhccCCc-EEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHH----HHHHc
Q 030225           53 RYHSLAPMYYRGAA-AAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL----YAQEN  127 (181)
Q Consensus        53 ~~~~~~~~~~~~~d-~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~----~~~~~  127 (181)
                      .|....... ...+ ++++|+|+.|...     .|...+.+.. .+.|+++|+||+|+.. .....++...    +++..
T Consensus        58 ~~~~~l~~i-~~~~~lIv~VVD~~D~~~-----s~~~~L~~~~-~~kpviLViNK~DLl~-~~~~~~~i~~~l~~~~k~~  129 (365)
T PRK13796         58 DFLKLLNGI-GDSDALVVNVVDIFDFNG-----SWIPGLHRFV-GNNPVLLVGNKADLLP-KSVKKNKVKNWLRQEAKEL  129 (365)
T ss_pred             HHHHHHHhh-cccCcEEEEEEECccCCC-----chhHHHHHHh-CCCCEEEEEEchhhCC-CccCHHHHHHHHHHHHHhc
Confidence            344443333 4444 9999999987431     2334444332 3678999999999954 2222333333    34555


Q ss_pred             CC---eEEEEecCCCCCHHHHHHHHHHH
Q 030225          128 GL---SFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus       128 ~~---~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      ++   .++.+||+++.|++++++.|.+.
T Consensus       130 g~~~~~v~~vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796        130 GLRPVDVVLISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             CCCcCcEEEEECCCCCCHHHHHHHHHHh
Confidence            65   58999999999999999999764

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.47  E-value=2.6e-06  Score=60.44  Aligned_cols=147  Identities=17%  Similarity=0.229  Sum_probs=89.6

Q ss_pred             chhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHH
Q 030225            4 GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERA   83 (181)
Q Consensus         4 GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~   83 (181)
                      ||.+|+.+|....+.....+.-.+.+..+++.-.+....+.+-=.+-.+++.-.........-+++.|||++....+..+
T Consensus        18 g~~~ll~rl~s~dfed~ses~~~te~hgwtid~kyysadi~lcishicde~~lpn~~~a~pl~a~vmvfdlse~s~l~al   97 (418)
T KOG4273|consen   18 GDQLLLHRLGSEDFEDESESNDATEFHGWTIDNKYYSADINLCISHICDEKFLPNAEIAEPLQAFVMVFDLSEKSGLDAL   97 (418)
T ss_pred             chHHHHHHhcchhheeeccccCceeeeceEecceeeecceeEEeecccchhccCCcccccceeeEEEEEeccchhhhHHH
Confidence            99999999998877665555555555556554443333333332332232222222233445688999999999999999


Q ss_pred             HHHHHHHHHhCCCCceEEEEEeCCCCccc--------------c----------------------------c--CCHHH
Q 030225           84 KKWVQELQRQGNPNLIMFLVANKVDLEEK--------------R----------------------------K--VKNEE  119 (181)
Q Consensus        84 ~~~~~~~~~~~~~~~p~ivi~nK~D~~~~--------------~----------------------------~--~~~~~  119 (181)
                      +.|+....-..  --..+.|+||.|....              .                            .  .....
T Consensus        98 qdwl~htdins--fdillcignkvdrvphhlahdeyrrrl~kasdpsrdl~~di~dfgisetegssllgsedasldirga  175 (418)
T KOG4273|consen   98 QDWLPHTDINS--FDILLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDLMIDICDFGISETEGSSLLGSEDASLDIRGA  175 (418)
T ss_pred             Hhhcccccccc--chhheecccccccccchhhhhHHHHHHHhhcCcchhHhhhhhhccccccccccccccccchhhHHHH
Confidence            99976542221  1124556899885210              0                            0  11223


Q ss_pred             HHHHHHHcCCeEEEEecCCC------------CCHHHHHHHHHHH
Q 030225          120 GELYAQENGLSFLETSAKSA------------HNVNELFYEIAKR  152 (181)
Q Consensus       120 ~~~~~~~~~~~~~~~Sa~~~------------~gi~~~~~~l~~~  152 (181)
                      ...|+.++++.+++.+|.+.            .|++.+|..|-..
T Consensus       176 ~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ah  220 (418)
T KOG4273|consen  176 ALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAH  220 (418)
T ss_pred             HHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhc
Confidence            46788889999999998543            3677777766443

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=98.46  E-value=4.8e-07  Score=72.68  Aligned_cols=103  Identities=24%  Similarity=0.193  Sum_probs=69.8

Q ss_pred             CchhHHHHHHhhCCCCC--------------ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEE
Q 030225            3 TGKTSLVLRFVKGQFFD--------------FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAA   68 (181)
Q Consensus         3 ~GKttLl~~l~~~~~~~--------------~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   68 (181)
                      =|||||...|+..+...              ....+-|++...-.+..-.+.+.++++|+|||.+|........+=+|++
T Consensus        20 hgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~~~~~~~nlidspghvdf~sevssas~l~d~a   99 (887)
T KOG0467|consen   20 HGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLLHKDYLINLIDSPGHVDFSSEVSSASRLSDGA   99 (887)
T ss_pred             CCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccccccCceEEEEecCCCccchhhhhhhhhhhcCCc
Confidence            39999999998654421              1112335555555556666778999999999999999988888889999


Q ss_pred             EEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCC
Q 030225           69 VVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL  109 (181)
Q Consensus        69 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~  109 (181)
                      ++++|+..+--.+...-..+...    .+...++++||+|.
T Consensus       100 lvlvdvvegv~~qt~~vlrq~~~----~~~~~~lvinkidr  136 (887)
T KOG0467|consen  100 LVLVDVVEGVCSQTYAVLRQAWI----EGLKPILVINKIDR  136 (887)
T ss_pred             EEEEeeccccchhHHHHHHHHHH----ccCceEEEEehhhh
Confidence            99999986432222111111121    23457788999993

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.42  E-value=1.2e-06  Score=65.32  Aligned_cols=113  Identities=16%  Similarity=0.245  Sum_probs=72.9

Q ss_pred             CCchhHHHHHHhhCCCCCccc-cceeeeEEEEEEEEC------Ce---------------------------------EE
Q 030225            2 GTGKTSLVLRFVKGQFFDFQE-STIGAAFFTQVLSLN------EV---------------------------------TI   41 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~-~t~~~~~~~~~~~~~------~~---------------------------------~~   41 (181)
                      ..||||+|+-|+.+.++.... |..++++....+.-+      |.                                 --
T Consensus        68 StGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnRf~csqmp~~vLe  147 (532)
T KOG1954|consen   68 STGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNRFMCSQLPNQVLE  147 (532)
T ss_pred             ccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHHHHHhcCChhhhh
Confidence            369999999999988875433 222334433333221      10                                 02


Q ss_pred             EEEEEeCCChh-----------hhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           42 KFDIWDTAGQE-----------RYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        42 ~~~i~D~~G~~-----------~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      .+.|+||||--           .|.....-|...+|.+|++||+.-.+.-++..+.+..++.+   .-.+=||+||.|+.
T Consensus       148 ~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~---EdkiRVVLNKADqV  224 (532)
T KOG1954|consen  148 SVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGH---EDKIRVVLNKADQV  224 (532)
T ss_pred             heeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCC---cceeEEEecccccc
Confidence            58899999931           23334556788999999999988766656666666666554   33466778999987


Q ss_pred             ccccCCH
Q 030225          111 EKRKVKN  117 (181)
Q Consensus       111 ~~~~~~~  117 (181)
                      +..++..
T Consensus       225 dtqqLmR  231 (532)
T KOG1954|consen  225 DTQQLMR  231 (532)
T ss_pred             CHHHHHH
Confidence            6555433

>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]

Probab=98.34  E-value=6.2e-06  Score=58.87  Aligned_cols=122  Identities=14%  Similarity=0.202  Sum_probs=79.4

Q ss_pred             ECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCCh----------hHHHHHHHHHHHHHHh-CCCCceEEEEE
Q 030225           36 LNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSM----------DSFERAKKWVQELQRQ-GNPNLIMFLVA  104 (181)
Q Consensus        36 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~~~~~-~~~~~p~ivi~  104 (181)
                      +.-..+.|..+|.+|+...+.-|-..|.+..++|||...+.-          ..+.+...++..+=.. -.....+++.+
T Consensus       197 FqVdkv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tisvIlFL  276 (379)
T KOG0099|consen  197 FQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTISVILFL  276 (379)
T ss_pred             EeccccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhheeEEe
Confidence            333445688999999999999999999999999999998751          1222322222222111 11345688889


Q ss_pred             eCCCCccc------------------------------ccCCHHHHHHHHHH-------------cCCeEEEEecCCCCC
Q 030225          105 NKVDLEEK------------------------------RKVKNEEGELYAQE-------------NGLSFLETSAKSAHN  141 (181)
Q Consensus       105 nK~D~~~~------------------------------~~~~~~~~~~~~~~-------------~~~~~~~~Sa~~~~g  141 (181)
                      ||.|+...                              +......+..++++             +-+.+..+.|.+.++
T Consensus       277 NKqDllaeKi~Agk~~i~dyFpEf~~y~~p~da~~es~~d~~v~raK~fird~FlRiSta~~Dg~h~CYpHFTcAvDTen  356 (379)
T KOG0099|consen  277 NKQDLLAEKILAGKSKIEDYFPEFARYTTPEDATPESGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTEN  356 (379)
T ss_pred             cHHHHHHHHHHcchhhHHHhChHHhccCCccccCCCCCCChhhHHHHHhhhhhHhhhccccCCCceecccceeEeechHH
Confidence            99997210                              01111112222222             124567889999999


Q ss_pred             HHHHHHHHHHHHHhhC
Q 030225          142 VNELFYEIAKRLAEVN  157 (181)
Q Consensus       142 i~~~~~~l~~~~~~~~  157 (181)
                      |..+|+.....+++.+
T Consensus       357 IrrVFnDcrdiIqr~h  372 (379)
T KOG0099|consen  357 IRRVFNDCRDIIQRMH  372 (379)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999988887765

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.26  E-value=1.4e-06  Score=65.27  Aligned_cols=48  Identities=21%  Similarity=0.228  Sum_probs=38.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE   52 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~   52 (181)
                      ||||||||+|+|.+.... ...+..|++.....+..+..   +.++||||-.
T Consensus       141 PNVGKSslIN~L~~k~~~-~~s~~PG~Tk~~q~i~~~~~---i~LlDtPGii  188 (322)
T COG1161         141 PNVGKSTLINRLLGKKVA-KTSNRPGTTKGIQWIKLDDG---IYLLDTPGII  188 (322)
T ss_pred             CCCcHHHHHHHHhcccce-eeCCCCceecceEEEEcCCC---eEEecCCCcC
Confidence            899999999999987763 34466688887777777765   6799999954

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=98.23  E-value=8.6e-06  Score=61.18  Aligned_cols=106  Identities=14%  Similarity=0.092  Sum_probs=65.3

Q ss_pred             EEEEEeCCChhhhhcc--chhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc-----
Q 030225           42 KFDIWDTAGQERYHSL--APMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK-----  114 (181)
Q Consensus        42 ~~~i~D~~G~~~~~~~--~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~-----  114 (181)
                      -+.|+|+.||+.|-..  .-.+-+..|-.++++.++|.-+.. .++.+-.+.   .-..|++++.+|+|+.....     
T Consensus       202 lVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~-tkEHLgi~~---a~~lPviVvvTK~D~~~ddr~~~v~  277 (527)
T COG5258         202 LVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKM-TKEHLGIAL---AMELPVIVVVTKIDMVPDDRFQGVV  277 (527)
T ss_pred             EEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchh-hhHhhhhhh---hhcCCEEEEEEecccCcHHHHHHHH
Confidence            4789999999977543  333446789999999988754322 122222222   24789999999999853210     


Q ss_pred             -------------------CCHHHHHHHHHHcC---CeEEEEecCCCCCHHHHHHHHHH
Q 030225          115 -------------------VKNEEGELYAQENG---LSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus       115 -------------------~~~~~~~~~~~~~~---~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                                         .........+-+.+   .|+|.+|+.+|+|++-+.+.+..
T Consensus       278 ~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e~f~~  336 (527)
T COG5258         278 EEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDEFFLL  336 (527)
T ss_pred             HHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHHHHHh
Confidence                               00000011122222   58999999999999766655543

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.19  E-value=4.2e-06  Score=61.79  Aligned_cols=48  Identities=21%  Similarity=0.284  Sum_probs=34.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE   52 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~   52 (181)
                      ||||||||+|+|.+...... .+..|++.....+..+.   .+.++||||-.
T Consensus       130 pnvGKSsliN~l~~~~~~~~-~~~~g~T~~~~~~~~~~---~~~l~DtPGi~  177 (287)
T PRK09563        130 PNVGKSTLINRLAGKKIAKT-GNRPGVTKAQQWIKLGK---GLELLDTPGIL  177 (287)
T ss_pred             CCCCHHHHHHHHhcCCcccc-CCCCCeEEEEEEEEeCC---cEEEEECCCcC
Confidence            89999999999998765332 34556666555555543   46799999963

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.19  E-value=3.3e-06  Score=62.02  Aligned_cols=47  Identities=21%  Similarity=0.314  Sum_probs=33.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCCh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ   51 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   51 (181)
                      ||||||||+|+|.+...... .+..|++.....+.++.   .+.++||||-
T Consensus       127 ~nvGKSslin~l~~~~~~~~-~~~~g~T~~~~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       127 PNVGKSTLINRLAGKKVAKV-GNRPGVTKGQQWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             CCCCHHHHHHHHhCCCcccc-CCCCCeecceEEEEeCC---CEEEEECCCc
Confidence            79999999999997664332 24455555555555543   4679999997

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.

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=98.15  E-value=6.9e-05  Score=53.03  Aligned_cols=134  Identities=17%  Similarity=0.191  Sum_probs=73.8

Q ss_pred             CCCchhHHHHHHhhCCCCC---------ccccceeeeEEEEEEEECCeEEEEEEEeCCChhh------------------
Q 030225            1 MGTGKTSLVLRFVKGQFFD---------FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER------------------   53 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~---------~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~------------------   53 (181)
                      +|.|||||+|.|+......         -+..|+........+.=++...++.++||||--.                  
T Consensus        55 SglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN~ncWePI~kyIneQ  134 (336)
T KOG1547|consen   55 SGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINNDNCWEPIEKYINEQ  134 (336)
T ss_pred             CCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCccchhHHHHHHHHHH
Confidence            6899999999998643322         1223444445555566678888999999999211                  


Q ss_pred             hh--------ccchhhccC--CcEEEEEEECCChhHHHHH-HHHHHHHHHhCCCCceEEEEEeCCCCcc--cccCCHHHH
Q 030225           54 YH--------SLAPMYYRG--AAAAVVVYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDLEE--KRKVKNEEG  120 (181)
Q Consensus        54 ~~--------~~~~~~~~~--~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~--~~~~~~~~~  120 (181)
                      |.        ......+.+  ++.++|.+..+. .++.-+ ...++.+.+.    +.++-|+-|+|...  .+....+..
T Consensus       135 ye~yL~eElni~R~kripDTRVHcclyFi~ptG-hsLrplDieflkrLt~v----vNvvPVIakaDtlTleEr~~FkqrI  209 (336)
T KOG1547|consen  135 YEQYLREELNIAREKRIPDTRVHCCLYFIPPTG-HSLRPLDIEFLKRLTEV----VNVVPVIAKADTLTLEERSAFKQRI  209 (336)
T ss_pred             HHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCC-CccCcccHHHHHHHhhh----heeeeeEeecccccHHHHHHHHHHH
Confidence            11        111222333  566777777663 232222 1233334332    34666777999532  233333344


Q ss_pred             HHHHHHcCCeEEEEecCCC
Q 030225          121 ELYAQENGLSFLETSAKSA  139 (181)
Q Consensus       121 ~~~~~~~~~~~~~~Sa~~~  139 (181)
                      ++-...+++.++.--+.+.
T Consensus       210 ~~el~~~~i~vYPq~~fde  228 (336)
T KOG1547|consen  210 RKELEKHGIDVYPQDSFDE  228 (336)
T ss_pred             HHHHHhcCccccccccccc
Confidence            4455567777665544443

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=98.15  E-value=4.2e-05  Score=61.28  Aligned_cols=93  Identities=17%  Similarity=0.203  Sum_probs=56.7

Q ss_pred             EEEEEeCCChh---hhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHH
Q 030225           42 KFDIWDTAGQE---RYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNE  118 (181)
Q Consensus        42 ~~~i~D~~G~~---~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~  118 (181)
                      .+.++|.||.+   ....-...+..++|++|||..+.+.-...+ ..++..+.+   .++.++|+.||.|.....+...+
T Consensus       207 DivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~se-k~Ff~~vs~---~KpniFIlnnkwDasase~ec~e  282 (749)
T KOG0448|consen  207 DIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSE-KQFFHKVSE---EKPNIFILNNKWDASASEPECKE  282 (749)
T ss_pred             cceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHH-HHHHHHhhc---cCCcEEEEechhhhhcccHHHHH
Confidence            36788999953   334445677889999999999876444333 222333322   24457777889998665554444


Q ss_pred             HHHHHHHHcCC--------eEEEEecCC
Q 030225          119 EGELYAQENGL--------SFLETSAKS  138 (181)
Q Consensus       119 ~~~~~~~~~~~--------~~~~~Sa~~  138 (181)
                      ....-+.+...        .+|.|||+.
T Consensus       283 ~V~~Qi~eL~v~~~~eA~DrvfFVS~~e  310 (749)
T KOG0448|consen  283 DVLKQIHELSVVTEKEAADRVFFVSAKE  310 (749)
T ss_pred             HHHHHHHhcCcccHhhhcCeeEEEeccc
Confidence            44443444432        478888654

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.14  E-value=2.4e-05  Score=67.93  Aligned_cols=106  Identities=21%  Similarity=0.190  Sum_probs=63.0

Q ss_pred             CCCchhHHHHHHhhCCCCCcc------ccceeeeEEEEEEEECCeEEEEEEEeCCChh--------hhhccchhhc----
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE--------RYHSLAPMYY----   62 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~~~----   62 (181)
                      ||+||||||++- +..++-..      ...++.+. .....+.+.   -.++|++|.-        .....|..++    
T Consensus       120 ~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~-~c~wwf~~~---avliDtaG~y~~~~~~~~~~~~~W~~fL~~L~  194 (1169)
T TIGR03348       120 PGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTR-NCDWWFTDE---AVLIDTAGRYTTQDSDPEEDAAAWLGFLGLLR  194 (1169)
T ss_pred             CCCchhHHHHhC-CCCCcCchhhccccccCCCCCc-ccceEecCC---EEEEcCCCccccCCCcccccHHHHHHHHHHHH
Confidence            799999999876 33332211      01112111 122223333   3599999931        1223344443    


Q ss_pred             -----cCCcEEEEEEECCChh-----H----HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           63 -----RGAAAAVVVYDITSMD-----S----FERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        63 -----~~~d~~i~v~d~~~~~-----s----~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                           +..+++|+++|+.+.-     .    -..++..++++.+......|+.+++||+|+..
T Consensus       195 k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll~  257 (1169)
T TIGR03348       195 KHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLLA  257 (1169)
T ss_pred             HhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhhc
Confidence                 4589999999987531     1    12345555666666567899999999999864

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.13  E-value=3e-05  Score=56.79  Aligned_cols=93  Identities=19%  Similarity=0.172  Sum_probs=66.9

Q ss_pred             cchhhccCCcEEEEEEECCChhH-HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEe
Q 030225           57 LAPMYYRGAAAAVVVYDITSMDS-FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETS  135 (181)
Q Consensus        57 ~~~~~~~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S  135 (181)
                      +.+.-..+.|-+++|+.+.+|+- ...+.+++-....   .+...+|++||+|+.+..+...++........+.+++.+|
T Consensus        72 L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~---~gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~~~s  148 (301)
T COG1162          72 LIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEA---GGIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVLFVS  148 (301)
T ss_pred             eeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHH---cCCcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEEEec
Confidence            34444566888888888888764 4445665554433   3556777799999976444333445666777899999999


Q ss_pred             cCCCCCHHHHHHHHHHH
Q 030225          136 AKSAHNVNELFYEIAKR  152 (181)
Q Consensus       136 a~~~~gi~~~~~~l~~~  152 (181)
                      +++++|++++.+++...
T Consensus       149 ~~~~~~~~~l~~~l~~~  165 (301)
T COG1162         149 AKNGDGLEELAELLAGK  165 (301)
T ss_pred             CcCcccHHHHHHHhcCC
Confidence            99999999999988654

>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=98.06  E-value=3.8e-06  Score=56.27  Aligned_cols=51  Identities=20%  Similarity=0.227  Sum_probs=27.2

Q ss_pred             CCCchhHHHHHHhhCCCC------CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhh
Q 030225            1 MGTGKTSLVLRFVKGQFF------DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY   54 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~------~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   54 (181)
                      ||||||||+|.|.+....      ......--++.....+..+.+.   .++||||-..+
T Consensus        44 SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l~~g~---~iIDTPGf~~~  100 (161)
T PF03193_consen   44 SGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPLPDGG---YIIDTPGFRSF  100 (161)
T ss_dssp             TTSSHHHHHHHHHTSS----S--------------SEEEEEETTSE---EEECSHHHHT-
T ss_pred             CCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEecCCCc---EEEECCCCCcc
Confidence            699999999999986321      1111111223334445554443   49999996543

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.

>TIGR00092 GTP-binding protein YchF

Probab=98.06  E-value=1.3e-05  Score=60.72  Aligned_cols=75  Identities=13%  Similarity=-0.047  Sum_probs=45.8

Q ss_pred             CCCchhHHHHHHhhCCC-CCccccceeeeEEEEEEEECC---------------eEEEEEEEeCCChhhh----hccc--
Q 030225            1 MGTGKTSLVLRFVKGQF-FDFQESTIGAAFFTQVLSLNE---------------VTIKFDIWDTAGQERY----HSLA--   58 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~---------------~~~~~~i~D~~G~~~~----~~~~--   58 (181)
                      ||+|||||++.|.+... ....-|..+.+...-.+.+.+               ....+.+.|+||...-    ..+.  
T Consensus        11 Pn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs~g~Glgn~   90 (368)
T TIGR00092        11 PNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGASKGEGLGNQ   90 (368)
T ss_pred             CCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchhcccCcchH
Confidence            89999999999998765 322212221222222223322               2246789999996421    1222  


Q ss_pred             -hhhccCCcEEEEEEECC
Q 030225           59 -PMYYRGAAAAVVVYDIT   75 (181)
Q Consensus        59 -~~~~~~~d~~i~v~d~~   75 (181)
                       -..++++|+++.|+++.
T Consensus        91 fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        91 FLANIREVDIIQHVVRCF  108 (368)
T ss_pred             HHHHHHhCCEEEEEEeCC
Confidence             23468899999999985

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.

>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=98.06  E-value=2.3e-05  Score=42.69  Aligned_cols=43  Identities=28%  Similarity=0.309  Sum_probs=30.4

Q ss_pred             CcEEEEEEECCC--hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCC
Q 030225           65 AAAAVVVYDITS--MDSFERAKKWVQELQRQGNPNLIMFLVANKVD  108 (181)
Q Consensus        65 ~d~~i~v~d~~~--~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D  108 (181)
                      .++++|++|++.  +.+.++...+++.++... .++|+++|.||+|
T Consensus        14 ~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F-~~~P~i~V~nK~D   58 (58)
T PF06858_consen   14 ADAILFIIDPSEQCGYSIEEQLSLFKEIKPLF-PNKPVIVVLNKID   58 (58)
T ss_dssp             -SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHT-TTS-EEEEE--TT
T ss_pred             cceEEEEEcCCCCCCCCHHHHHHHHHHHHHHc-CCCCEEEEEeccC
Confidence            689999999996  456777888888888874 5899999999998

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.

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.06  E-value=5.6e-05  Score=53.85  Aligned_cols=76  Identities=13%  Similarity=0.110  Sum_probs=44.3

Q ss_pred             CCCchhHHHHHHhhC--CCCCcc---ccceeeeEEEEEEEEC-CeEEEEEEEeCCChhhhhc------cchhhccC--Cc
Q 030225            1 MGTGKTSLVLRFVKG--QFFDFQ---ESTIGAAFFTQVLSLN-EVTIKFDIWDTAGQERYHS------LAPMYYRG--AA   66 (181)
Q Consensus         1 ~~~GKttLl~~l~~~--~~~~~~---~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~------~~~~~~~~--~d   66 (181)
                      +++|||+|+|.|++.  .+....   .-|.|  +..+..... +....+.++||+|......      .....+..  ++
T Consensus        16 ~~sGKS~llN~l~~~~~~f~~~~~~~~~T~g--i~~~~~~~~~~~~~~v~~lDteG~~~~~~~~~~~~~~~~~l~~llss   93 (224)
T cd01851          16 QSSGKSFLLNHLFGTLSGFDVMDTSQQTTKG--IWMWSVPFKLGKEHAVLLLDTEGTDGRERGEFEDDARLFALATLLSS   93 (224)
T ss_pred             CCCCHHHHHHHHhCCCCCeEecCCCCCCccc--eEEEeccccCCCcceEEEEecCCcCccccCchhhhhHHHHHHHHHhC
Confidence            689999999999988  553221   11222  222222221 2346899999999643221      12233334  78


Q ss_pred             EEEEEEECCChh
Q 030225           67 AAVVVYDITSMD   78 (181)
Q Consensus        67 ~~i~v~d~~~~~   78 (181)
                      ++||..+.....
T Consensus        94 ~~i~n~~~~~~~  105 (224)
T cd01851          94 VLIYNSWETILG  105 (224)
T ss_pred             EEEEeccCcccH
Confidence            888887766433

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

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.05  E-value=1.6e-05  Score=59.63  Aligned_cols=104  Identities=17%  Similarity=0.211  Sum_probs=65.1

Q ss_pred             EEEEEeCCChhhhhccchhhcc--CCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc-----
Q 030225           42 KFDIWDTAGQERYHSLAPMYYR--GAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK-----  114 (181)
Q Consensus        42 ~~~i~D~~G~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~-----  114 (181)
                      -+.++|.+|+..|....-.-+.  -.|..++|+++...-.+. .++.+-.+..   .+.|++++.+|+|+.+...     
T Consensus       250 lvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~t-TrEHLgl~~A---L~iPfFvlvtK~Dl~~~~~~~~tv  325 (591)
T KOG1143|consen  250 LVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWT-TREHLGLIAA---LNIPFFVLVTKMDLVDRQGLKKTV  325 (591)
T ss_pred             eEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCccc-cHHHHHHHHH---hCCCeEEEEEeeccccchhHHHHH
Confidence            4789999999988665433333  257788888877544332 2334444433   4789999999999854211     


Q ss_pred             -------------------CCHHHHHHHHHH----cCCeEEEEecCCCCCHHHHHHHH
Q 030225          115 -------------------VKNEEGELYAQE----NGLSFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus       115 -------------------~~~~~~~~~~~~----~~~~~~~~Sa~~~~gi~~~~~~l  149 (181)
                                         -..+++...+++    .-.|+|.+|+.+|+|++-+...|
T Consensus       326 ~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll~~fL  383 (591)
T KOG1143|consen  326 KDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLLRTFL  383 (591)
T ss_pred             HHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHHHHHH
Confidence                               112222222222    22589999999999987655444

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=98.02  E-value=8.9e-06  Score=57.13  Aligned_cols=127  Identities=16%  Similarity=0.189  Sum_probs=89.2

Q ss_pred             EEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCC----------hhHHHHHHHHHHHHHHhC-CCCce
Q 030225           31 TQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITS----------MDSFERAKKWVQELQRQG-NPNLI   99 (181)
Q Consensus        31 ~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~~~~~~-~~~~p   99 (181)
                      ..++.++-.++-|.+.|.+|+...+.-|-++|.+...++|++.++.          ...+++..-++..+..+- -.+.+
T Consensus       189 i~eypfdl~~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~yPWF~nss  268 (359)
T KOG0085|consen  189 IIEYPFDLQKIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSS  268 (359)
T ss_pred             ceecCcchhhheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhccccccCCc
Confidence            3445566677788999999999888889999999988888776653          334445555555555531 25788


Q ss_pred             EEEEEeCCCCccc----------------ccCCHHHHHHHHHHc----C------CeEEEEecCCCCCHHHHHHHHHHHH
Q 030225          100 MFLVANKVDLEEK----------------RKVKNEEGELYAQEN----G------LSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       100 ~ivi~nK~D~~~~----------------~~~~~~~~~~~~~~~----~------~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +++.+||.|+.+.                ...+.+.+.+|+.+.    +      +.-..+.|.+.+||.-+|..+...+
T Consensus       269 VIlFLNKkDlLEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKii~SHfTcATDT~NIRfVFaaVkDti  348 (359)
T KOG0085|consen  269 VILFLNKKDLLEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYSHFTCATDTENIRFVFAAVKDTI  348 (359)
T ss_pred             eEEEechhhhhhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccceeeeeeeecccchhHHHHHHHHHHHH
Confidence            9999999998432                223344455555543    1      2336788999999999999998888


Q ss_pred             HhhC
Q 030225          154 AEVN  157 (181)
Q Consensus       154 ~~~~  157 (181)
                      .+..
T Consensus       349 Lq~~  352 (359)
T KOG0085|consen  349 LQLN  352 (359)
T ss_pred             HHhh
Confidence            7753

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=98.00  E-value=0.00024  Score=53.17  Aligned_cols=99  Identities=17%  Similarity=0.142  Sum_probs=54.1

Q ss_pred             EEEEEEeCCChhhhhccchhhc--------cCCcEEEEEEECCChhH-HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           41 IKFDIWDTAGQERYHSLAPMYY--------RGAAAAVVVYDITSMDS-FERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~--------~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      +...++++.|-..-......++        -..|+++-|+|+.+-.. ...+...+..-...     --++++||.|+.+
T Consensus        85 ~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia~-----AD~ivlNK~Dlv~  159 (323)
T COG0523          85 PDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLAF-----ADVIVLNKTDLVD  159 (323)
T ss_pred             CCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHHh-----CcEEEEecccCCC
Confidence            4456778877533222222222        23578999999876433 22122222222122     2578899999987


Q ss_pred             cccCCHHHHHHHHHHcC--CeEEEEecCCCCCHHHHHH
Q 030225          112 KRKVKNEEGELYAQENG--LSFLETSAKSAHNVNELFY  147 (181)
Q Consensus       112 ~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~~~~  147 (181)
                      ..+  .+......++.+  ++++.++. ...+..+++.
T Consensus       160 ~~~--l~~l~~~l~~lnp~A~i~~~~~-~~~~~~~ll~  194 (323)
T COG0523         160 AEE--LEALEARLRKLNPRARIIETSY-GDVDLAELLD  194 (323)
T ss_pred             HHH--HHHHHHHHHHhCCCCeEEEccc-cCCCHHHhhc
Confidence            554  445556666665  56777776 3344444443

>PRK13796 GTPase YqeH; Provisional

Probab=97.99  E-value=8.3e-06  Score=62.22  Aligned_cols=49  Identities=20%  Similarity=0.224  Sum_probs=33.6

Q ss_pred             CCCchhHHHHHHhhCCC----CCccccceeeeEEEEEEEECCeEEEEEEEeCCChh
Q 030225            1 MGTGKTSLVLRFVKGQF----FDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE   52 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~----~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~   52 (181)
                      ||||||||+|+|+....    .....+..|++.....+.++++   ..++||||-.
T Consensus       169 ~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~l~~~---~~l~DTPGi~  221 (365)
T PRK13796        169 TNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIPLDDG---SFLYDTPGII  221 (365)
T ss_pred             CCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEEcCCC---cEEEECCCcc
Confidence            79999999999986431    1123344566666666666554   3699999964

>cd03112 CobW_like The function of this protein family is unkown

Probab=97.96  E-value=3.6e-05  Score=51.77  Aligned_cols=64  Identities=13%  Similarity=0.096  Sum_probs=35.6

Q ss_pred             EEEEEEEeCCChhhhhccchh--------hccCCcEEEEEEECCChhHH-HHHHHHHHHHHHhCCCCceEEEEEeCCCC
Q 030225           40 TIKFDIWDTAGQERYHSLAPM--------YYRGAAAAVVVYDITSMDSF-ERAKKWVQELQRQGNPNLIMFLVANKVDL  109 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~--------~~~~~d~~i~v~d~~~~~s~-~~~~~~~~~~~~~~~~~~p~ivi~nK~D~  109 (181)
                      .....++|++|...-......        ..-..|.+++++|+...... .....+..++...      -++++||+|+
T Consensus        86 ~~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~a------d~ivlnk~dl  158 (158)
T cd03112          86 AFDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIAFA------DRILLNKTDL  158 (158)
T ss_pred             CCCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHHHC------CEEEEecccC
Confidence            356789999996432222211        23357899999997643321 1112222333222      4668899985

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=97.94  E-value=1.6e-05  Score=60.18  Aligned_cols=51  Identities=18%  Similarity=0.231  Sum_probs=29.8

Q ss_pred             CCCchhHHHHHHhhCCCCCc-ccc-----ceeeeEEEEEEEECCeEEEEEEEeCCChhhh
Q 030225            1 MGTGKTSLVLRFVKGQFFDF-QES-----TIGAAFFTQVLSLNEVTIKFDIWDTAGQERY   54 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~-~~~-----t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   54 (181)
                      ||||||||+|+|++.....+ ..+     .--++.....+.+.++.   .++||||-..+
T Consensus       214 sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~~---~liDTPGir~~  270 (347)
T PRK12288        214 SGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHGG---DLIDSPGVREF  270 (347)
T ss_pred             CCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCCC---EEEECCCCCcc
Confidence            79999999999997543211 111     01123334444554332   39999996543

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=97.92  E-value=3.9e-05  Score=50.50  Aligned_cols=65  Identities=20%  Similarity=0.182  Sum_probs=45.8

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCC
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL  109 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~  109 (181)
                      +.+.++|+|+...  ......+..+|.++++.+.+ ..++..+...++.+.... ...++.++.|+.+.
T Consensus        45 yd~VIiD~p~~~~--~~~~~~l~~aD~vviv~~~~-~~s~~~~~~~l~~l~~~~-~~~~~~lVvN~~~~  109 (139)
T cd02038          45 YDYIIIDTGAGIS--DNVLDFFLAADEVIVVTTPE-PTSITDAYALIKKLAKQL-RVLNFRVVVNRAES  109 (139)
T ss_pred             CCEEEEECCCCCC--HHHHHHHHhCCeEEEEcCCC-hhHHHHHHHHHHHHHHhc-CCCCEEEEEeCCCC
Confidence            6789999997542  22346788899999999975 455665555566665442 44567889999874

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.

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.92  E-value=1.2e-05  Score=58.83  Aligned_cols=51  Identities=18%  Similarity=0.158  Sum_probs=31.9

Q ss_pred             CCCchhHHHHHHhhCC------CCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhh
Q 030225            1 MGTGKTSLVLRFVKGQ------FFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY   54 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~------~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   54 (181)
                      ||||||||+|+|..+.      ........--++.....+.++++.   .++||||-.++
T Consensus       173 SGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG---~iiDTPGf~~~  229 (301)
T COG1162         173 SGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGGG---WIIDTPGFRSL  229 (301)
T ss_pred             CCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCCC---EEEeCCCCCcc
Confidence            7999999999998622      222222222234456666775443   29999996543

>PRK12289 GTPase RsgA; Reviewed

Probab=97.91  E-value=1.5e-05  Score=60.35  Aligned_cols=48  Identities=23%  Similarity=0.302  Sum_probs=29.3

Q ss_pred             CCCchhHHHHHHhhCCCCCcccccee-------eeEEEEEEEECCeEEEEEEEeCCChh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIG-------AAFFTQVLSLNEVTIKFDIWDTAGQE   52 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~-------~~~~~~~~~~~~~~~~~~i~D~~G~~   52 (181)
                      ||||||||+|+|++....... ...+       ++.....+...++.   .++||||-.
T Consensus       181 SgVGKSSLIN~L~~~~~~~t~-~vs~~~~rGrHTT~~~~l~~l~~g~---~liDTPG~~  235 (352)
T PRK12289        181 SGVGKSSLINRLIPDVELRVG-KVSGKLGRGRHTTRHVELFELPNGG---LLADTPGFN  235 (352)
T ss_pred             CCCCHHHHHHHHcCccccccc-cccCCCCCCCCcCceeEEEECCCCc---EEEeCCCcc
Confidence            799999999999965432211 1111       33344445554333   599999954

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.91  E-value=8.2e-05  Score=55.69  Aligned_cols=97  Identities=16%  Similarity=0.110  Sum_probs=56.9

Q ss_pred             eEEEEEEEeCCChhhhhcc----chhh--------ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeC
Q 030225           39 VTIKFDIWDTAGQERYHSL----APMY--------YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANK  106 (181)
Q Consensus        39 ~~~~~~i~D~~G~~~~~~~----~~~~--------~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK  106 (181)
                      ..+.+.++||||.......    ...+        -...+..++|.|++...  +.+.. .....+.   -.+.-+|+||
T Consensus       195 ~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~--~~~~~-a~~f~~~---~~~~giIlTK  268 (318)
T PRK10416        195 RGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQ--NALSQ-AKAFHEA---VGLTGIILTK  268 (318)
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCCh--HHHHH-HHHHHhh---CCCCEEEEEC
Confidence            3467899999996432211    1111        12467889999998532  22221 1222111   1356788999


Q ss_pred             CCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHH
Q 030225          107 VDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFY  147 (181)
Q Consensus       107 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~  147 (181)
                      .|....    .-.+...+...++|+.+++  +|++++++..
T Consensus       269 lD~t~~----~G~~l~~~~~~~~Pi~~v~--~Gq~~~Dl~~  303 (318)
T PRK10416        269 LDGTAK----GGVVFAIADELGIPIKFIG--VGEGIDDLQP  303 (318)
T ss_pred             CCCCCC----ccHHHHHHHHHCCCEEEEe--CCCChhhCcc
Confidence            995322    1234455566799999998  8888877643

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=97.89  E-value=2.2e-05  Score=59.79  Aligned_cols=49  Identities=20%  Similarity=0.270  Sum_probs=32.8

Q ss_pred             CCCchhHHHHHHhhCCC----CCccccceeeeEEEEEEEECCeEEEEEEEeCCChh
Q 030225            1 MGTGKTSLVLRFVKGQF----FDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE   52 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~----~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~   52 (181)
                      ||||||||+|+|++...    .....+..|++.....+..++.   +.++||||-.
T Consensus       163 ~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~~~~~~---~~l~DtPG~~  215 (360)
T TIGR03597       163 TNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEIPLDDG---HSLYDTPGII  215 (360)
T ss_pred             CCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEEEeCCC---CEEEECCCCC
Confidence            79999999999997532    1123344555666666665332   4699999954

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.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=97.89  E-value=2e-05  Score=56.91  Aligned_cols=49  Identities=18%  Similarity=0.125  Sum_probs=29.0

Q ss_pred             CCCchhHHHHHHhhCCCCCc------cccceeeeEEEEEEEECCeEEEEEEEeCCChhh
Q 030225            1 MGTGKTSLVLRFVKGQFFDF------QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER   53 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   53 (181)
                      ||||||||+|+|.+......      ......++.....+...+.    .++||||-..
T Consensus       129 sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l~~~----~liDtPG~~~  183 (245)
T TIGR00157       129 SGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHFHGG----LIADTPGFNE  183 (245)
T ss_pred             CCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEcCCc----EEEeCCCccc
Confidence            79999999999997532211      1111113333344444432    5999999654

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

>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=97.86  E-value=0.00013  Score=45.73  Aligned_cols=97  Identities=16%  Similarity=0.089  Sum_probs=57.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|+||||+...|-..-.......+.-     ......... .+.++|+|+.....  ....+..+|.++++.+.+ ..++
T Consensus         9 gg~gkt~~~~~la~~~~~~~~~~~~l-----~d~d~~~~~-D~IIiDtpp~~~~~--~~~~l~~aD~vlvvv~~~-~~s~   79 (106)
T cd03111           9 GGVGATTLAANLAVALAKEAGRRVLL-----VDLDLQFGD-DYVVVDLGRSLDEV--SLAALDQADRVFLVTQQD-LPSI   79 (106)
T ss_pred             CCCcHHHHHHHHHHHHHhcCCCcEEE-----EECCCCCCC-CEEEEeCCCCcCHH--HHHHHHHcCeEEEEecCC-hHHH
Confidence            58999997766543211110111111     111111111 78899999865322  344677899999998864 5677


Q ss_pred             HHHHHHHHHHHHhCCC-CceEEEEEeC
Q 030225           81 ERAKKWVQELQRQGNP-NLIMFLVANK  106 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~-~~p~ivi~nK  106 (181)
                      ..+..+++.+.+...+ ...+.+++|+
T Consensus        80 ~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          80 RNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             HHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            7777887777765444 4566677774

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.

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=97.84  E-value=6.4e-05  Score=55.68  Aligned_cols=76  Identities=14%  Similarity=0.072  Sum_probs=49.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEEC---------------CeEEEEEEEeCCChh----hhhccchhh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN---------------EVTIKFDIWDTAGQE----RYHSLAPMY   61 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~---------------~~~~~~~i~D~~G~~----~~~~~~~~~   61 (181)
                      ||||||||+|.|......+..-|..+++-..-.+.+.               .....++++|++|..    .-..+-..|
T Consensus        29 PNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkGAs~G~GLGN~F  108 (391)
T KOG1491|consen   29 PNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKGASAGEGLGNKF  108 (391)
T ss_pred             CCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccCcccCcCchHHH
Confidence            8999999999999877655444544433322233332               234678999998853    233444444


Q ss_pred             ---ccCCcEEEEEEECCC
Q 030225           62 ---YRGAAAAVVVYDITS   76 (181)
Q Consensus        62 ---~~~~d~~i~v~d~~~   76 (181)
                         ++.+|+++-|+++.+
T Consensus       109 Ls~iR~vDaifhVVr~f~  126 (391)
T KOG1491|consen  109 LSHIRHVDAIFHVVRAFE  126 (391)
T ss_pred             HHhhhhccceeEEEEecC
Confidence               567899999988664

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.81  E-value=8.1e-05  Score=54.53  Aligned_cols=96  Identities=16%  Similarity=0.059  Sum_probs=56.7

Q ss_pred             EEEEEEEeCCChhhhhccc----hh---h-----ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCC
Q 030225           40 TIKFDIWDTAGQERYHSLA----PM---Y-----YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKV  107 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~----~~---~-----~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~  107 (181)
                      .+.+.++||||........    ..   .     -..+|..++|+|++-..  +.+. +.....+..   .+.-+|.||.
T Consensus       154 ~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~--~~~~-~~~~f~~~~---~~~g~IlTKl  227 (272)
T TIGR00064       154 NIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQ--NALE-QAKVFNEAV---GLTGIILTKL  227 (272)
T ss_pred             CCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCH--HHHH-HHHHHHhhC---CCCEEEEEcc
Confidence            4678999999965322211    11   1     12389999999997432  2222 222222221   2467889999


Q ss_pred             CCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHH
Q 030225          108 DLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFY  147 (181)
Q Consensus       108 D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~  147 (181)
                      |.....    -.........++|+.+++  +|++++++..
T Consensus       228 De~~~~----G~~l~~~~~~~~Pi~~~~--~Gq~~~dl~~  261 (272)
T TIGR00064       228 DGTAKG----GIILSIAYELKLPIKFIG--VGEKIDDLAP  261 (272)
T ss_pred             CCCCCc----cHHHHHHHHHCcCEEEEe--CCCChHhCcc
Confidence            964322    233444556689988887  8888876644

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.

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=97.79  E-value=0.00013  Score=45.32  Aligned_cols=76  Identities=14%  Similarity=0.138  Sum_probs=46.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|+||||+...+...-. ....++.       .+..+.. +.+.++|+|+.....  ....+..+|.++++.+. +..++
T Consensus         9 gG~Gkst~~~~la~~~~-~~~~~vl-------~~d~d~~-~d~viiD~p~~~~~~--~~~~l~~ad~viv~~~~-~~~s~   76 (104)
T cd02042           9 GGVGKTTTAVNLAAALA-RRGKRVL-------LIDLDPQ-YDYIIIDTPPSLGLL--TRNALAAADLVLIPVQP-SPLDL   76 (104)
T ss_pred             CCcCHHHHHHHHHHHHH-hCCCcEE-------EEeCCCC-CCEEEEeCcCCCCHH--HHHHHHHCCEEEEeccC-CHHHH
Confidence            58999998766543211 1111221       1222211 678899999865322  23667789999999986 45667


Q ss_pred             HHHHHHHH
Q 030225           81 ERAKKWVQ   88 (181)
Q Consensus        81 ~~~~~~~~   88 (181)
                      ..+.++++
T Consensus        77 ~~~~~~~~   84 (104)
T cd02042          77 DGLEKLLE   84 (104)
T ss_pred             HHHHHHHH
Confidence            76666665

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.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=97.79  E-value=0.00021  Score=56.58  Aligned_cols=126  Identities=16%  Similarity=0.175  Sum_probs=72.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||.|||||++.|...-..    .|+..-... ...+.+..-++.+.++|..  .+.+.. ..+=+|++++++|.+-.-.+
T Consensus        78 pGtGKsTLirSlVrr~tk----~ti~~i~GP-iTvvsgK~RRiTflEcp~D--l~~miD-vaKIaDLVlLlIdgnfGfEM  149 (1077)
T COG5192          78 PGTGKSTLIRSLVRRFTK----QTIDEIRGP-ITVVSGKTRRITFLECPSD--LHQMID-VAKIADLVLLLIDGNFGFEM  149 (1077)
T ss_pred             CCCChhHHHHHHHHHHHH----hhhhccCCc-eEEeecceeEEEEEeChHH--HHHHHh-HHHhhheeEEEeccccCcee
Confidence            799999999988743211    111111111 2235677789999999943  333322 33458999999997733211


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHH------HHHHH-cCCeEEEEecCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE------LYAQE-NGLSFLETSAKS  138 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~------~~~~~-~~~~~~~~Sa~~  138 (181)
                       +.-.+++.+..+..+  .++-|+++.|+-.... ......      .|..- .|+.+|++|-..
T Consensus       150 -ETmEFLnil~~HGmP--rvlgV~ThlDlfk~~s-tLr~~KKrlkhRfWtEiyqGaKlFylsgV~  210 (1077)
T COG5192         150 -ETMEFLNILISHGMP--RVLGVVTHLDLFKNPS-TLRSIKKRLKHRFWTEIYQGAKLFYLSGVE  210 (1077)
T ss_pred             -hHHHHHHHHhhcCCC--ceEEEEeecccccChH-HHHHHHHHHhhhHHHHHcCCceEEEecccc
Confidence             123455666666543  3777899999854222 111111      12211 267888888664

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=97.79  E-value=0.00021  Score=53.60  Aligned_cols=85  Identities=7%  Similarity=0.010  Sum_probs=46.1

Q ss_pred             EEEEEEeCCChhhhhccchhhcc--------CCcEEEEEEECCChhHHHH-HHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYR--------GAAAAVVVYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~--------~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      ....++++.|...-..+...++.        ..++++.|+|+.+...... ......++..      --++++||+|+..
T Consensus        91 ~d~IvIEttG~a~p~~i~~~~~~~~~l~~~~~l~~vvtvvDa~~~~~~~~~~~~~~~Qi~~------AD~IvlnK~Dl~~  164 (318)
T PRK11537         91 FDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGY------ADRILLTKTDVAG  164 (318)
T ss_pred             CCEEEEECCCccCHHHHHHHHhcChhhcccEEeccEEEEEEhhhhhhhccccHHHHHHHHh------CCEEEEeccccCC
Confidence            45678888886544333333322        2478999999875332111 1111122211      2477889999875


Q ss_pred             cccCCHHHHHHHHHHcC--CeEEEEe
Q 030225          112 KRKVKNEEGELYAQENG--LSFLETS  135 (181)
Q Consensus       112 ~~~~~~~~~~~~~~~~~--~~~~~~S  135 (181)
                      ..    +......+..+  ++++.++
T Consensus       165 ~~----~~~~~~l~~lnp~a~i~~~~  186 (318)
T PRK11537        165 EA----EKLRERLARINARAPVYTVV  186 (318)
T ss_pred             HH----HHHHHHHHHhCCCCEEEEec
Confidence            32    34555555554  4566543

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.79  E-value=0.003  Score=42.21  Aligned_cols=137  Identities=21%  Similarity=0.193  Sum_probs=68.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCC-Chh--------------hh-----------
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTA-GQE--------------RY-----------   54 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~-G~~--------------~~-----------   54 (181)
                      ||||||||+.++.+.--..-+ ..-|  +...++.-++.-+-|.+.|+. |..              .|           
T Consensus        14 PGvGKtTl~~ki~e~L~~~g~-kvgG--f~t~EVR~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY~V~v~~le~i~   90 (179)
T COG1618          14 PGVGKTTLVLKIAEKLREKGY-KVGG--FITPEVREGGKRIGFKIVDLATGEEGILARVGFSRPRVGKYGVNVEGLEEIA   90 (179)
T ss_pred             CCccHHHHHHHHHHHHHhcCc-eeee--EEeeeeecCCeEeeeEEEEccCCceEEEEEcCCCCcccceEEeeHHHHHHHh
Confidence            899999999988742111101 1112  333444445555566666665 210              11           


Q ss_pred             hccchhhccCCcEEEEEEECCChhHHHH-HHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEE
Q 030225           55 HSLAPMYYRGAAAAVVVYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLE  133 (181)
Q Consensus        55 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  133 (181)
                      .......++.+|++|  +|---+  ++. ...+...+...-..++|.+..+.+.+.    ..    ..+..+..+..++.
T Consensus        91 ~~al~rA~~~aDvII--IDEIGp--MElks~~f~~~ve~vl~~~kpliatlHrrsr----~P----~v~~ik~~~~v~v~  158 (179)
T COG1618          91 IPALRRALEEADVII--IDEIGP--MELKSKKFREAVEEVLKSGKPLIATLHRRSR----HP----LVQRIKKLGGVYVF  158 (179)
T ss_pred             HHHHHHHhhcCCEEE--Eecccc--hhhccHHHHHHHHHHhcCCCcEEEEEecccC----Ch----HHHHhhhcCCEEEE
Confidence            111234456678554  453322  222 123333343333356787777776653    11    12223344444443


Q ss_pred             EecCCCCCHHHHHHHHHHHHHh
Q 030225          134 TSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       134 ~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                         .+.+|-+.+++.+...+..
T Consensus       159 ---lt~~NR~~i~~~Il~~L~~  177 (179)
T COG1618         159 ---LTPENRNRILNEILSVLKG  177 (179)
T ss_pred             ---EccchhhHHHHHHHHHhcc
Confidence               5556666888888776543

>PRK14974 cell division protein FtsY; Provisional

Probab=97.79  E-value=8.4e-05  Score=55.93  Aligned_cols=96  Identities=18%  Similarity=0.080  Sum_probs=56.2

Q ss_pred             EEEEEEeCCChhhhhcc----chhh--ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc
Q 030225           41 IKFDIWDTAGQERYHSL----APMY--YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK  114 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~----~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~  114 (181)
                      +.+.++||+|.......    ...+  ..+.|..++|.|++......   .........   -..--+|+||.|....--
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~---~~a~~f~~~---~~~~giIlTKlD~~~~~G  296 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAV---EQAREFNEA---VGIDGVILTKVDADAKGG  296 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHH---HHHHHHHhc---CCCCEEEEeeecCCCCcc
Confidence            46899999996532111    1111  23578899999987543211   112222211   124677889999743211


Q ss_pred             CCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHH
Q 030225          115 VKNEEGELYAQENGLSFLETSAKSAHNVNELFYE  148 (181)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~  148 (181)
                          .+...+...+.|+.+++  +|++++++..+
T Consensus       297 ----~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~~~  324 (336)
T PRK14974        297 ----AALSIAYVIGKPILFLG--VGQGYDDLIPF  324 (336)
T ss_pred             ----HHHHHHHHHCcCEEEEe--CCCChhhcccC
Confidence                23344445689988887  79998877543

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.72  E-value=3.1e-05  Score=56.65  Aligned_cols=112  Identities=14%  Similarity=0.148  Sum_probs=67.3

Q ss_pred             EEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC--CHHH
Q 030225           42 KFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV--KNEE  119 (181)
Q Consensus        42 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~--~~~~  119 (181)
                      ++.|.|+|||+-.......-..-.|++++++..+.+-.-...-+.+..+..  +.-+.++++-||+|+....+-  ..++
T Consensus       126 HVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaavei--M~LkhiiilQNKiDli~e~~A~eq~e~  203 (466)
T KOG0466|consen  126 HVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAAVEI--MKLKHIIILQNKIDLIKESQALEQHEQ  203 (466)
T ss_pred             EEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHHHHH--hhhceEEEEechhhhhhHHHHHHHHHH
Confidence            578999999985433222222224666666665542111111122222211  122458888999999754332  1233


Q ss_pred             HHHHHHHc---CCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          120 GELYAQEN---GLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       120 ~~~~~~~~---~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ...|.+..   +.|++.+||.-+.||+-+.++|++.+.-
T Consensus       204 I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPv  242 (466)
T KOG0466|consen  204 IQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPV  242 (466)
T ss_pred             HHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCC
Confidence            44555543   4699999999999999999999987754

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.62  E-value=0.0006  Score=52.92  Aligned_cols=85  Identities=12%  Similarity=0.023  Sum_probs=45.5

Q ss_pred             EEEEEEEeCCChhhhhcc----chhh--ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccc
Q 030225           40 TIKFDIWDTAGQERYHSL----APMY--YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR  113 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~----~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~  113 (181)
                      .+.+.|+||+|.......    ...+  ..+.+-+++|+|++-...-.   .....+.+.   -.+.-+|+||.|....-
T Consensus       182 ~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~---~~a~~F~~~---~~~~g~IlTKlD~~arg  255 (429)
T TIGR01425       182 NFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAE---AQAKAFKDS---VDVGSVIITKLDGHAKG  255 (429)
T ss_pred             CCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHH---HHHHHHHhc---cCCcEEEEECccCCCCc
Confidence            467899999996432211    1111  23578899999987442221   122222221   23677889999963211


Q ss_pred             cCCHHHHHHHHHHcCCeEEEE
Q 030225          114 KVKNEEGELYAQENGLSFLET  134 (181)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~  134 (181)
                          -.+.......+.|+.++
T Consensus       256 ----G~aLs~~~~t~~PI~fi  272 (429)
T TIGR01425       256 ----GGALSAVAATKSPIIFI  272 (429)
T ss_pred             ----cHHhhhHHHHCCCeEEE
Confidence                11233344456665555

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.

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=97.61  E-value=0.00075  Score=48.50  Aligned_cols=78  Identities=15%  Similarity=0.027  Sum_probs=45.4

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh-------ccchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH-------SLAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~~~~~~~d~~i~v~   72 (181)
                      |.+|||||+..+.+.... +.+.   +++.....-.......++++.|.||--+-.       ...-+..+.|+++++|.
T Consensus        68 PSvGksTl~~~l~g~~s~vasye---fttl~~vpG~~~y~gaKiqlldlpgiiegakdgkgrg~qviavartcnli~~vl  144 (358)
T KOG1487|consen   68 PSVGKSTLLSKLTGTFSEVAAYE---FTTLTTVPGVIRYKGAKIQLLDLPGIIEGAKDGKGRGKQVIAVARTCNLIFIVL  144 (358)
T ss_pred             CccchhhhhhhhcCCCCcccccc---ceeEEEecceEeccccceeeecCcchhcccccCCCCccEEEEEeecccEEEEEe
Confidence            789999999988864321 2221   222222222222334467899999942211       11234467799999999


Q ss_pred             ECCChhHHH
Q 030225           73 DITSMDSFE   81 (181)
Q Consensus        73 d~~~~~s~~   81 (181)
                      |+--|-+..
T Consensus       145 d~~kp~~hk  153 (358)
T KOG1487|consen  145 DVLKPLSHK  153 (358)
T ss_pred             eccCcccHH
Confidence            987654433

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=97.59  E-value=0.00017  Score=49.54  Aligned_cols=82  Identities=23%  Similarity=0.185  Sum_probs=40.8

Q ss_pred             EEEEEEeCCChhhhhcc--c-h--hhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC
Q 030225           41 IKFDIWDTAGQERYHSL--A-P--MYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV  115 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~--~-~--~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~  115 (181)
                      ....++++.|...-..+  . .  ...-..+.+|.|+|+.+..........+......     --++++||+|+.+..+ 
T Consensus        85 ~d~IiIE~sG~a~p~~l~~~~~~~~~~~~~~~iI~vVDa~~~~~~~~~~~~~~~Qi~~-----ADvIvlnK~D~~~~~~-  158 (178)
T PF02492_consen   85 PDRIIIETSGLADPAPLILQDPPLKEDFRLDSIITVVDATNFDELENIPELLREQIAF-----ADVIVLNKIDLVSDEQ-  158 (178)
T ss_dssp             -SEEEEEEECSSGGGGHHHHSHHHHHHESESEEEEEEEGTTHGGHTTHCHHHHHHHCT------SEEEEE-GGGHHHH--
T ss_pred             cCEEEECCccccccchhhhccccccccccccceeEEeccccccccccchhhhhhcchh-----cCEEEEeccccCChhh-
Confidence            45667788875433322  0 0  0012468899999997653333332222222222     2477789999876442 


Q ss_pred             CHHHHHHHHHHcC
Q 030225          116 KNEEGELYAQENG  128 (181)
Q Consensus       116 ~~~~~~~~~~~~~  128 (181)
                      ..+...+..++.+
T Consensus       159 ~i~~~~~~ir~ln  171 (178)
T PF02492_consen  159 KIERVREMIRELN  171 (178)
T ss_dssp             -HHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHC
Confidence            2244455555544

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=97.59  E-value=0.0002  Score=55.84  Aligned_cols=79  Identities=22%  Similarity=0.180  Sum_probs=53.2

Q ss_pred             CeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc-cccCC
Q 030225           38 EVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE-KRKVK  116 (181)
Q Consensus        38 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~-~~~~~  116 (181)
                      +..+-++++|.|||..|.+...+.++-.|+.++|+|..+.--.+.-.-+.+.+.++   -+| +++.||.|..- +.++.
T Consensus        95 ~~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~~ER---IkP-vlv~NK~DRAlLELq~~  170 (842)
T KOG0469|consen   95 GNGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAER---IKP-VLVMNKMDRALLELQLS  170 (842)
T ss_pred             CcceeEEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHHHHHHHHHhh---ccc-eEEeehhhHHHHhhcCC
Confidence            44678899999999999999999999999999999988753332222223333332   234 55679999531 23444


Q ss_pred             HHHH
Q 030225          117 NEEG  120 (181)
Q Consensus       117 ~~~~  120 (181)
                      .++.
T Consensus       171 ~EeL  174 (842)
T KOG0469|consen  171 QEEL  174 (842)
T ss_pred             HHHH
Confidence            4443

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=97.57  E-value=0.00088  Score=45.90  Aligned_cols=86  Identities=24%  Similarity=0.226  Sum_probs=60.2

Q ss_pred             eEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHH
Q 030225           39 VTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNE  118 (181)
Q Consensus        39 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~  118 (181)
                      ..+.+.++|+|+....  .....+..+|.++++...+ ..+...+..+++.+...   +.|+.+++||.|...   ....
T Consensus        91 ~~~d~viiDtpp~~~~--~~~~~l~~aD~vliv~~~~-~~~~~~~~~~~~~l~~~---~~~~~vV~N~~~~~~---~~~~  161 (179)
T cd03110          91 EGAELIIIDGPPGIGC--PVIASLTGADAALLVTEPT-PSGLHDLERAVELVRHF---GIPVGVVINKYDLND---EIAE  161 (179)
T ss_pred             cCCCEEEEECcCCCcH--HHHHHHHcCCEEEEEecCC-cccHHHHHHHHHHHHHc---CCCEEEEEeCCCCCc---chHH
Confidence            4578899999976432  2344668899999999976 44666677777666543   456889999998643   2345


Q ss_pred             HHHHHHHHcCCeEEE
Q 030225          119 EGELYAQENGLSFLE  133 (181)
Q Consensus       119 ~~~~~~~~~~~~~~~  133 (181)
                      +..+++++.+++++.
T Consensus       162 ~~~~~~~~~~~~vl~  176 (179)
T cd03110         162 EIEDYCEEEGIPILG  176 (179)
T ss_pred             HHHHHHHHcCCCeEE
Confidence            566778878887653

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=97.52  E-value=0.0075  Score=46.59  Aligned_cols=78  Identities=14%  Similarity=0.241  Sum_probs=45.8

Q ss_pred             EEEEEEECC--C--hhHHHHH-HHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCC--C
Q 030225           67 AAVVVYDIT--S--MDSFERA-KKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKS--A  139 (181)
Q Consensus        67 ~~i~v~d~~--~--~~s~~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~--~  139 (181)
                      ++++.-|-+  +  ++.+.+. .+.++.+..   -++|+++++|-.+-..  +...+....+..+++++++.+++.+  .
T Consensus       148 GiVVTTDGSi~dipRe~Y~eAEervI~ELk~---igKPFvillNs~~P~s--~et~~L~~eL~ekY~vpVlpvnc~~l~~  222 (492)
T PF09547_consen  148 GIVVTTDGSITDIPRENYVEAEERVIEELKE---IGKPFVILLNSTKPYS--EETQELAEELEEKYDVPVLPVNCEQLRE  222 (492)
T ss_pred             eEEEecCCCccCCChHHHHHHHHHHHHHHHH---hCCCEEEEEeCCCCCC--HHHHHHHHHHHHHhCCcEEEeehHHcCH
Confidence            555554433  1  3444443 345555544   4789999999876422  2233445667777899988888764  3


Q ss_pred             CCHHHHHHHH
Q 030225          140 HNVNELFYEI  149 (181)
Q Consensus       140 ~gi~~~~~~l  149 (181)
                      +.|..+++.+
T Consensus       223 ~DI~~Il~~v  232 (492)
T PF09547_consen  223 EDITRILEEV  232 (492)
T ss_pred             HHHHHHHHHH
Confidence            4444444444

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.

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.50  E-value=0.00017  Score=53.36  Aligned_cols=51  Identities=16%  Similarity=0.186  Sum_probs=30.4

Q ss_pred             CCCchhHHHHHHhhCCCCCcc------ccceeeeEEEEEEEECCeEEEEEEEeCCChhhh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY   54 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   54 (181)
                      ||+|||||+|.|.+......-      .....++.....+...+..   .++|+||-..+
T Consensus       170 sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~~---~liDtPG~~~~  226 (287)
T cd01854         170 SGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGGG---LLIDTPGFREF  226 (287)
T ss_pred             CCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCCC---EEEECCCCCcc
Confidence            799999999999975432211      1111233334444554322   49999997654

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.

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=97.49  E-value=9.1e-05  Score=57.64  Aligned_cols=48  Identities=23%  Similarity=0.184  Sum_probs=37.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE   52 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~   52 (181)
                      |||||||+||+|.+.+.+. ...|.|-+....++.+...   +.+-||||..
T Consensus       323 PNVGKSSTINaLvG~KkVs-VS~TPGkTKHFQTi~ls~~---v~LCDCPGLV  370 (562)
T KOG1424|consen  323 PNVGKSSTINALVGRKKVS-VSSTPGKTKHFQTIFLSPS---VCLCDCPGLV  370 (562)
T ss_pred             CCCchhHHHHHHhcCceee-eecCCCCcceeEEEEcCCC---ceecCCCCcc
Confidence            8999999999999988655 4478887777777666653   5699999964

>PRK00098 GTPase RsgA; Reviewed

Probab=97.48  E-value=0.00019  Score=53.37  Aligned_cols=50  Identities=18%  Similarity=0.107  Sum_probs=28.8

Q ss_pred             CCCchhHHHHHHhhCCCCCcc-cc-----ceeeeEEEEEEEECCeEEEEEEEeCCChhh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ-ES-----TIGAAFFTQVLSLNEVTIKFDIWDTAGQER   53 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~-~~-----t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   53 (181)
                      ||||||||+|+|.+......- .+     ...++.....+..++.   ..++|+||-..
T Consensus       173 sgvGKStlin~l~~~~~~~~g~v~~~~~~G~htT~~~~~~~~~~~---~~~~DtpG~~~  228 (298)
T PRK00098        173 SGVGKSTLLNALAPDLELKTGEISEALGRGKHTTTHVELYDLPGG---GLLIDTPGFSS  228 (298)
T ss_pred             CCCCHHHHHHHHhCCcCCCCcceeccCCCCCcccccEEEEEcCCC---cEEEECCCcCc
Confidence            799999999999875432211 00     0012233344444433   25899999643

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=97.48  E-value=0.006  Score=48.52  Aligned_cols=104  Identities=16%  Similarity=0.205  Sum_probs=61.6

Q ss_pred             EEEEEEeCCCh-------------hhhhccchhhccCCcEEEEEEECCChhH-HHHHHHHHHHHHHhCCCCceEEEEEeC
Q 030225           41 IKFDIWDTAGQ-------------ERYHSLAPMYYRGAAAAVVVYDITSMDS-FERAKKWVQELQRQGNPNLIMFLVANK  106 (181)
Q Consensus        41 ~~~~i~D~~G~-------------~~~~~~~~~~~~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~ivi~nK  106 (181)
                      .++.+.|.||.             +....+..+|+.+.+++|+|+--..-+. -..+..++..+   ...+...++|++|
T Consensus       412 qRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSVDAERSnVTDLVsq~---DP~GrRTIfVLTK  488 (980)
T KOG0447|consen  412 QRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVDAERSIVTDLVSQM---DPHGRRTIFVLTK  488 (980)
T ss_pred             ceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCcchhhhhHHHHHHhc---CCCCCeeEEEEee
Confidence            47899999993             3345677899999999999975221111 01122222222   3357789999999


Q ss_pred             CCCcccccCCHHHHHHHHHHcC-----CeEEEEecCCC---CCHHHHHH
Q 030225          107 VDLEEKRKVKNEEGELYAQENG-----LSFLETSAKSA---HNVNELFY  147 (181)
Q Consensus       107 ~D~~~~~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~---~gi~~~~~  147 (181)
                      .|+.+..--.+.....++...-     +.||.+-.=.|   +.|+.+.+
T Consensus       489 VDlAEknlA~PdRI~kIleGKLFPMKALGYfaVVTGrGnssdSIdaIR~  537 (980)
T KOG0447|consen  489 VDLAEKNVASPSRIQQIIEGKLFPMKALGYFAVVTGKGNSSESIEAIRE  537 (980)
T ss_pred             cchhhhccCCHHHHHHHHhcCccchhhcceeEEEecCCCcchhHHHHHH
Confidence            9997754445555555544321     34666643333   34554443

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=97.44  E-value=0.0027  Score=43.26  Aligned_cols=84  Identities=14%  Similarity=0.078  Sum_probs=51.9

Q ss_pred             EEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHH
Q 030225           42 KFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE  121 (181)
Q Consensus        42 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~  121 (181)
                      .+.++|+|+.....  ....+..+|.+|++.+.+ ..++..+..+++.+...  ......+++|+.+.....  ..+...
T Consensus        64 d~viiD~p~~~~~~--~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~~~~~--~~~~~~iv~N~~~~~~~~--~~~~~~  136 (179)
T cd02036          64 DYILIDSPAGIERG--FITAIAPADEALLVTTPE-ISSLRDADRVKGLLEAL--GIKVVGVIVNRVRPDMVE--GGDMVE  136 (179)
T ss_pred             CEEEEECCCCCcHH--HHHHHHhCCcEEEEeCCC-cchHHHHHHHHHHHHHc--CCceEEEEEeCCcccccc--hhhHHH
Confidence            68899999864332  344567899999999875 45566666666666553  234567889998863321  112223


Q ss_pred             HHHHHcCCeEE
Q 030225          122 LYAQENGLSFL  132 (181)
Q Consensus       122 ~~~~~~~~~~~  132 (181)
                      .+.+.++.+++
T Consensus       137 ~~~~~~~~~v~  147 (179)
T cd02036         137 DIEEILGVPLL  147 (179)
T ss_pred             HHHHHhCCCEE
Confidence            44444566654

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.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.42  E-value=0.0011  Score=50.64  Aligned_cols=92  Identities=12%  Similarity=0.013  Sum_probs=48.2

Q ss_pred             EEEEEEEeCCChhhhhcc---chhhc---cCCcEEEEEEECCCh-hHHHHHHHHHHHHHHhCCC--CceEEEEEeCCCCc
Q 030225           40 TIKFDIWDTAGQERYHSL---APMYY---RGAAAAVVVYDITSM-DSFERAKKWVQELQRQGNP--NLIMFLVANKVDLE  110 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~---~~~~~---~~~d~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~--~~p~ivi~nK~D~~  110 (181)
                      ...+.++||+|.......   ....+   ....-.++|++++.. +...++..-+.........  ..+.=+|+||.|..
T Consensus       215 ~~DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi~~f~~~~~~p~~~~~~~~~~I~TKlDEt  294 (374)
T PRK14722        215 NKHMVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLDEA  294 (374)
T ss_pred             CCCEEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHHHHHHHhhcccccccCCCCEEEEeccccC
Confidence            357889999996532211   11112   233456888898853 3344433222222111000  01346778999953


Q ss_pred             ccccCCHHHHHHHHHHcCCeEEEEe
Q 030225          111 EKRKVKNEEGELYAQENGLSFLETS  135 (181)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~S  135 (181)
                      .    ..-.+..++...++|+.+++
T Consensus       295 ~----~~G~~l~~~~~~~lPi~yvt  315 (374)
T PRK14722        295 S----NLGGVLDTVIRYKLPVHYVS  315 (374)
T ss_pred             C----CccHHHHHHHHHCcCeEEEe
Confidence            3    22344566666788876664

>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=97.35  E-value=0.0018  Score=44.09  Aligned_cols=84  Identities=14%  Similarity=0.072  Sum_probs=45.5

Q ss_pred             EEEEEEEeCCChhhhhc----cchhh--ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccc
Q 030225           40 TIKFDIWDTAGQERYHS----LAPMY--YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR  113 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~----~~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~  113 (181)
                      .+.+.++|++|......    ....+  ....+.+++|+|......   ...+...+.+..  + ..-+|.||.|.....
T Consensus        82 ~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~---~~~~~~~~~~~~--~-~~~viltk~D~~~~~  155 (173)
T cd03115          82 NFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQD---AVNQAKAFNEAL--G-ITGVILTKLDGDARG  155 (173)
T ss_pred             CCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChH---HHHHHHHHHhhC--C-CCEEEEECCcCCCCc
Confidence            34678999999742211    11111  124899999999865432   223334443332  2 356777999964322


Q ss_pred             cCCHHHHHHHHHHcCCeEEE
Q 030225          114 KVKNEEGELYAQENGLSFLE  133 (181)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~  133 (181)
                      .    .....+...++|+..
T Consensus       156 g----~~~~~~~~~~~p~~~  171 (173)
T cd03115         156 G----AALSIRAVTGKPIKF  171 (173)
T ss_pred             c----hhhhhHHHHCcCeEe
Confidence            1    222355556666544

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.

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=97.32  E-value=0.00033  Score=52.86  Aligned_cols=102  Identities=15%  Similarity=0.134  Sum_probs=58.6

Q ss_pred             EEEEEeCCChhhhhccchhhc--cCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHH
Q 030225           42 KFDIWDTAGQERYHSLAPMYY--RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEE  119 (181)
Q Consensus        42 ~~~i~D~~G~~~~~~~~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~  119 (181)
                      -+.|+|..|++.|-...-.-+  .-.|.-++++-++.. ..-...+.+-..+.   .++|++++.+|+|+..... ..+-
T Consensus       220 viTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaG-IiGmTKEHLgLALa---L~VPVfvVVTKIDMCPANi-LqEt  294 (641)
T KOG0463|consen  220 VITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAG-IIGMTKEHLGLALA---LHVPVFVVVTKIDMCPANI-LQET  294 (641)
T ss_pred             eEEEEeccchhhhhheeeeccccCCCCceEEEeccccc-ceeccHHhhhhhhh---hcCcEEEEEEeeccCcHHH-HHHH
Confidence            478999999998865432222  125666777776532 11112222222222   4789999999999853211 1111


Q ss_pred             -----------------------------HHHHHHHcCCeEEEEecCCCCCHHHHHHH
Q 030225          120 -----------------------------GELYAQENGLSFLETSAKSAHNVNELFYE  148 (181)
Q Consensus       120 -----------------------------~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~  148 (181)
                                                   +..|-.+.-+++|.+|-.+|+|+.-+.-.
T Consensus       295 mKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LLkmF  352 (641)
T KOG0463|consen  295 MKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLLKMF  352 (641)
T ss_pred             HHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHHHHHH
Confidence                                         11222223368899999999998755443

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.29  E-value=0.0015  Score=56.48  Aligned_cols=70  Identities=20%  Similarity=0.205  Sum_probs=43.3

Q ss_pred             EEEEEeCCChh--------hhhccchhh---------ccCCcEEEEEEECCChh------H---HHHHHHHHHHHHHhCC
Q 030225           42 KFDIWDTAGQE--------RYHSLAPMY---------YRGAAAAVVVYDITSMD------S---FERAKKWVQELQRQGN   95 (181)
Q Consensus        42 ~~~i~D~~G~~--------~~~~~~~~~---------~~~~d~~i~v~d~~~~~------s---~~~~~~~~~~~~~~~~   95 (181)
                      +-.++||.|.-        .-...|..+         .+..+++|+.+|+++.-      .   ...++.=++++...-.
T Consensus       175 eaVlIDtaGry~~q~s~~~~~~~~W~~fL~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~  254 (1188)
T COG3523         175 EAVLIDTAGRYITQDSADEVDRAEWLGFLGLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLH  254 (1188)
T ss_pred             ceEEEcCCcceecccCcchhhHHHHHHHHHHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhc
Confidence            34589998831        223344433         45689999999988621      1   1112222444444434


Q ss_pred             CCceEEEEEeCCCCcc
Q 030225           96 PNLIMFLVANKVDLEE  111 (181)
Q Consensus        96 ~~~p~ivi~nK~D~~~  111 (181)
                      -..|+.+++||.|+..
T Consensus       255 ~~~PVYl~lTk~Dll~  270 (1188)
T COG3523         255 ARLPVYLVLTKADLLP  270 (1188)
T ss_pred             cCCceEEEEecccccc
Confidence            6789999999999854

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.24  E-value=0.0014  Score=44.73  Aligned_cols=44  Identities=23%  Similarity=0.178  Sum_probs=27.6

Q ss_pred             cEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           66 AAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        66 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      |++++|+|+.++.+-.. ..+.+.+. ....++|+++++||+|+.+
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            78999999987532211 12222211 1124689999999999954

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

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.23  E-value=0.0049  Score=49.12  Aligned_cols=89  Identities=15%  Similarity=0.140  Sum_probs=49.2

Q ss_pred             EEEEEEEeCCChhhhhcc-------chhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccc
Q 030225           40 TIKFDIWDTAGQERYHSL-------APMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEK  112 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~-------~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~  112 (181)
                      .+.+.|+||+|.......       .... . ....++|++.+.  +...+...+..+..    ..+.-+|+||.|... 
T Consensus       428 ~~DLVLIDTaG~s~~D~~l~eeL~~L~aa-~-~~a~lLVLpAts--s~~Dl~eii~~f~~----~~~~gvILTKlDEt~-  498 (559)
T PRK12727        428 DYKLVLIDTAGMGQRDRALAAQLNWLRAA-R-QVTSLLVLPANA--HFSDLDEVVRRFAH----AKPQGVVLTKLDETG-  498 (559)
T ss_pred             cCCEEEecCCCcchhhHHHHHHHHHHHHh-h-cCCcEEEEECCC--ChhHHHHHHHHHHh----hCCeEEEEecCcCcc-
Confidence            467899999996432211       1111 1 234566777663  23333333343332    235778899999632 


Q ss_pred             ccCCHHHHHHHHHHcCCeEEEEecCCCCCH
Q 030225          113 RKVKNEEGELYAQENGLSFLETSAKSAHNV  142 (181)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  142 (181)
                         ..-.........++++.+++  +|..|
T Consensus       499 ---~lG~aLsv~~~~~LPI~yvt--~GQ~V  523 (559)
T PRK12727        499 ---RFGSALSVVVDHQMPITWVT--DGQRV  523 (559)
T ss_pred             ---chhHHHHHHHHhCCCEEEEe--CCCCc
Confidence               22345556666788877774  44444

>COG1161 Predicted GTPases [General function prediction only]

Probab=97.15  E-value=0.0011  Score=49.88  Aligned_cols=96  Identities=22%  Similarity=0.164  Sum_probs=62.6

Q ss_pred             EEeCCChh-hhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHH
Q 030225           45 IWDTAGQE-RYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY  123 (181)
Q Consensus        45 i~D~~G~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~  123 (181)
                      +-+.+|++ .+.......+..+|+++.|+|+.++.+...     ..+.+.. .++|.++++||.|+..... ...=...+
T Consensus        14 i~~~~g~~~k~~~~~~~~~~~~d~vvevvDar~P~~s~~-----~~l~~~v-~~k~~i~vlNK~DL~~~~~-~~~W~~~~   86 (322)
T COG1161          14 IQWFPGHMKKAKRQLKEVLKSVDVVVEVVDARDPLGTRN-----PELERIV-KEKPKLLVLNKADLAPKEV-TKKWKKYF   86 (322)
T ss_pred             ccCCCCchHHHHHHHHHhcccCCEEEEEEeccccccccC-----ccHHHHH-ccCCcEEEEehhhcCCHHH-HHHHHHHH
Confidence            34457875 556666778899999999999999865322     1222221 3455699999999965333 22222334


Q ss_pred             HHHcCCeEEEEecCCCCCHHHHHH
Q 030225          124 AQENGLSFLETSAKSAHNVNELFY  147 (181)
Q Consensus       124 ~~~~~~~~~~~Sa~~~~gi~~~~~  147 (181)
                      .++.+...+.++++.+.+...+..
T Consensus        87 ~~~~~~~~~~v~~~~~~~~~~i~~  110 (322)
T COG1161          87 KKEEGIKPIFVSAKSRQGGKKIRK  110 (322)
T ss_pred             HhcCCCccEEEEeecccCccchHH
Confidence            444467778888888887777764

>PRK13695 putative NTPase; Provisional

Probab=97.12  E-value=0.012  Score=40.21  Aligned_cols=78  Identities=18%  Similarity=0.187  Sum_probs=41.7

Q ss_pred             hhccCCcEEEEEEEC---CChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEec
Q 030225           60 MYYRGAAAAVVVYDI---TSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSA  136 (181)
Q Consensus        60 ~~~~~~d~~i~v~d~---~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  136 (181)
                      ..+.++++  +++|-   .+..+ ......+..+.   ..+.|++++.+|...       .....++..-.+..++++  
T Consensus        92 ~~l~~~~~--lllDE~~~~e~~~-~~~~~~l~~~~---~~~~~~i~v~h~~~~-------~~~~~~i~~~~~~~i~~~--  156 (174)
T PRK13695         92 RALEEADV--IIIDEIGKMELKS-PKFVKAVEEVL---DSEKPVIATLHRRSV-------HPFVQEIKSRPGGRVYEL--  156 (174)
T ss_pred             hccCCCCE--EEEECCCcchhhh-HHHHHHHHHHH---hCCCeEEEEECchhh-------HHHHHHHhccCCcEEEEE--
Confidence            34566776  57772   22111 11223333333   246789998887532       122333444455667776  


Q ss_pred             CCCCCHHHHHHHHHHHH
Q 030225          137 KSAHNVNELFYEIAKRL  153 (181)
Q Consensus       137 ~~~~gi~~~~~~l~~~~  153 (181)
                       +.+|-+++.+.+.+.+
T Consensus       157 -~~~~r~~~~~~~~~~~  172 (174)
T PRK13695        157 -TPENRDSLPFEILNRL  172 (174)
T ss_pred             -cchhhhhHHHHHHHHH
Confidence             4556667777777654

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=97.11  E-value=0.0044  Score=37.42  Aligned_cols=90  Identities=14%  Similarity=0.076  Sum_probs=48.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhcc-chhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSL-APMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|+||||+...+...-....+ +..         .++    .+.++|+++....... .......+|.++++.+... .+
T Consensus         8 ~G~Gktt~~~~l~~~l~~~g~-~v~---------~~~----d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~~   72 (99)
T cd01983           8 GGVGKTTLAANLAAALAKRGK-RVL---------LID----DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTTPEA-LA   72 (99)
T ss_pred             CCCCHHHHHHHHHHHHHHCCC-eEE---------EEC----CEEEEeCCCCccchhhhhhhhhhhCCEEEEecCCch-hh
Confidence            489999998887643211111 111         111    6789999986532221 1456667899999988754 34


Q ss_pred             HHHHHHHHHHHHH-hCCCCceEEEEEe
Q 030225           80 FERAKKWVQELQR-QGNPNLIMFLVAN  105 (181)
Q Consensus        80 ~~~~~~~~~~~~~-~~~~~~p~ivi~n  105 (181)
                      ............. ......+..++.|
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~vv~N   99 (99)
T cd01983          73 VLGARRLTEVVLELAIEGLRPVGVVVN   99 (99)
T ss_pred             HHHHHHHHHHHHHhhccCCceEEEEeC
Confidence            4443333222222 2223444555443

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=97.07  E-value=0.0054  Score=43.58  Aligned_cols=104  Identities=13%  Similarity=0.179  Sum_probs=63.5

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH--HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCH
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS--FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKN  117 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~  117 (181)
                      .+.|.|+|+.|.....  ....+..+|.+|+=.-.+..+.  -.....|+..+.....+..|.-|+.|+..-.. .....
T Consensus        83 ~~d~VlvDleG~as~~--~~~aia~sDlVlIP~~~s~lD~~eA~~t~~~v~~~~~~~~~~ip~~Vl~Tr~~~~~-~~~~~  159 (231)
T PF07015_consen   83 GFDFVLVDLEGGASEL--NDYAIARSDLVLIPMQPSQLDADEAAKTFKWVRRLEKAERRDIPAAVLFTRVPAAR-LTRAQ  159 (231)
T ss_pred             CCCEEEEeCCCCCchh--HHHHHHHCCEEEECCCCChHHHHHHHHHHHHHHHHHHhhCCCCCeeEEEecCCcch-hhHHH
Confidence            3678999998865322  3556677998888665553322  22334555555554457889999999986321 11111


Q ss_pred             HHHHHHHHHcCCeEEEEecCCCCCHHHHHHH
Q 030225          118 EEGELYAQENGLSFLETSAKSAHNVNELFYE  148 (181)
Q Consensus       118 ~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~  148 (181)
                      .....+..  ++|++.+.-.+...+.++|..
T Consensus       160 ~~~~e~~~--~lpvl~t~l~eR~Af~~m~~~  188 (231)
T PF07015_consen  160 RIISEQLE--SLPVLDTELHERDAFRAMFSR  188 (231)
T ss_pred             HHHHHHHh--cCCccccccccHHHHHHHHHh
Confidence            11222222  588888888887777777773

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 [].

>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=97.02  E-value=0.015  Score=39.30  Aligned_cols=90  Identities=13%  Similarity=0.057  Sum_probs=72.6

Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHH
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNE  144 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  144 (181)
                      .|.++|++|.+...++..++.-+..+...... ..+.++++-....+...+...+..+++..++++++.+.-...++...
T Consensus        65 IDlIVFvinl~sk~SL~~ve~SL~~vd~~ffl-GKVCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~~~le~~~~~~~  143 (176)
T PF11111_consen   65 IDLIVFVINLHSKYSLQSVEASLSHVDPSFFL-GKVCFLATNAGRESHCSVHPNEVRKLAATYNSPLLFADLENEEGRTS  143 (176)
T ss_pred             eEEEEEEEecCCcccHHHHHHHHhhCChhhhc-cceEEEEcCCCcccccccCHHHHHHHHHHhCCCEEEeecccchHHHH
Confidence            69999999999999999888877777443323 34677777777667778888999999999999999999998888888


Q ss_pred             HHHHHHHHHHh
Q 030225          145 LFYEIAKRLAE  155 (181)
Q Consensus       145 ~~~~l~~~~~~  155 (181)
                      +-+.|.+.+.-
T Consensus       144 lAqRLL~~lqi  154 (176)
T PF11111_consen  144 LAQRLLRMLQI  154 (176)
T ss_pred             HHHHHHHHHHH
Confidence            88877776544

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 [].

>PRK10646 ADP-binding protein; Provisional

Probab=96.84  E-value=0.0063  Score=40.57  Aligned_cols=50  Identities=20%  Similarity=0.246  Sum_probs=25.5

Q ss_pred             CCchhHHHHHHhhCCCCCccccceeeeEEEEEEE-ECCeEEEEEEEeCCChh
Q 030225            2 GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLS-LNEVTIKFDIWDTAGQE   52 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~~i~D~~G~~   52 (181)
                      |+|||||.+.+...-.......+++.+... .+. -+..-+++-+|=..+.+
T Consensus        38 GaGKTtf~rgl~~~Lg~~~~V~SPTFtlv~-~Y~~~~~~l~H~DlYRL~~~~   88 (153)
T PRK10646         38 GAGKTTFSRGFLQALGHQGNVKSPTYTLVE-PYTLDNLMVYHFDLYRLADPE   88 (153)
T ss_pred             CCCHHHHHHHHHHHcCCCCCCCCCCEeeEE-EeeCCCCCEEEEeeccCCCHH
Confidence            899999999997643332222222222211 121 12234566666555443

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=96.81  E-value=0.0025  Score=40.90  Aligned_cols=52  Identities=21%  Similarity=0.312  Sum_probs=24.8

Q ss_pred             CCchhHHHHHHhhCCCCC--ccccceeeeEEEEEEE-ECCeEEEEEEEeCCChhhhhc
Q 030225            2 GTGKTSLVLRFVKGQFFD--FQESTIGAAFFTQVLS-LNEVTIKFDIWDTAGQERYHS   56 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~--~~~~t~~~~~~~~~~~-~~~~~~~~~i~D~~G~~~~~~   56 (181)
                      |+|||||.+.+...-...  ..+||..  .. ..+. -+..-+++-++-..+.++...
T Consensus        25 GaGKTtf~r~l~~~lg~~~~V~SPTF~--l~-~~Y~~~~~~l~H~DLYRl~~~~e~~~   79 (123)
T PF02367_consen   25 GAGKTTFVRGLARALGIDEEVTSPTFS--LV-NEYEGGNIPLYHFDLYRLEDPEELED   79 (123)
T ss_dssp             TSSHHHHHHHHHHHTT--S----TTTT--SE-EEEEETTEEEEEEE-TT-SSTHHHHH
T ss_pred             CCCHHHHHHHHHHHcCCCCCcCCCCeE--EE-EEecCCCceEEEeeccccCCHHHHHH
Confidence            899999999987643322  2334332  21 2222 222335566665555554333

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.

>KOG2484 consensus GTPase [General function prediction only]

Probab=96.81  E-value=0.00073  Score=51.24  Aligned_cols=47  Identities=19%  Similarity=0.295  Sum_probs=35.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCCh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ   51 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   51 (181)
                      ||+||||++|+|........ -++.|.+.....+..+.   .+.|.|.||-
T Consensus       261 PNVGKSSvINsL~~~k~C~v-g~~pGvT~smqeV~Ldk---~i~llDsPgi  307 (435)
T KOG2484|consen  261 PNVGKSSVINSLKRRKACNV-GNVPGVTRSMQEVKLDK---KIRLLDSPGI  307 (435)
T ss_pred             CCCChhHHHHHHHHhccccC-CCCccchhhhhheeccC---CceeccCCce
Confidence            89999999999998776443 25566666666665554   4679999994

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.80  E-value=0.0053  Score=47.73  Aligned_cols=89  Identities=16%  Similarity=0.097  Sum_probs=49.3

Q ss_pred             EEEEEEeCCChhhhhc----cchhhc--cCCcEEEEEEECCC-hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccc
Q 030225           41 IKFDIWDTAGQERYHS----LAPMYY--RGAAAAVVVYDITS-MDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR  113 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~----~~~~~~--~~~d~~i~v~d~~~-~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~  113 (181)
                      ..+.++||+|......    ....+.  ....-.++|+|++- ...+.+   ++....    .-.+-=+|+||.|...  
T Consensus       270 ~d~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~---~~~~f~----~~~~~~~I~TKlDEt~--  340 (420)
T PRK14721        270 KHMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLDE---VISAYQ----GHGIHGCIITKVDEAA--  340 (420)
T ss_pred             CCEEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCCHHHHHH---HHHHhc----CCCCCEEEEEeeeCCC--
Confidence            4678999999543211    112221  22446778889883 333332   222221    2234567789999633  


Q ss_pred             cCCHHHHHHHHHHcCCeEEEEecCCCCCH
Q 030225          114 KVKNEEGELYAQENGLSFLETSAKSAHNV  142 (181)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  142 (181)
                        ..-.+..++...++++.+++  +|.+|
T Consensus       341 --~~G~~l~~~~~~~lPi~yvt--~Gq~V  365 (420)
T PRK14721        341 --SLGIALDAVIRRKLVLHYVT--NGQKV  365 (420)
T ss_pred             --CccHHHHHHHHhCCCEEEEE--CCCCc
Confidence              22344566667788887774  45555

>COG0802 Predicted ATPase or kinase [General function prediction only]

Probab=96.76  E-value=0.0046  Score=40.79  Aligned_cols=52  Identities=23%  Similarity=0.231  Sum_probs=27.4

Q ss_pred             CCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh
Q 030225            2 GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER   53 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   53 (181)
                      |+|||||.+.+...-.......+++.+.......-...-+++-+|-....++
T Consensus        35 GAGKTtf~rgi~~~Lg~~~~V~SPTFtlv~~Y~~~~~~lyH~DlYRl~d~ee   86 (149)
T COG0802          35 GAGKTTLVRGIAKGLGVDGNVKSPTFTLVEEYEEGRLPLYHFDLYRLSDPEE   86 (149)
T ss_pred             cCChHHHHHHHHHHcCCCCcccCCCeeeehhhcCCCCcEEEEeeeccCChHH
Confidence            8999999999876544322222222222111111233456677776665443

>PRK10867 signal recognition particle protein; Provisional

Probab=96.69  E-value=0.011  Score=46.20  Aligned_cols=87  Identities=13%  Similarity=0.028  Sum_probs=46.8

Q ss_pred             EEEEEEEeCCChhhhhc----cchhh--ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccc
Q 030225           40 TIKFDIWDTAGQERYHS----LAPMY--YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR  113 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~----~~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~  113 (181)
                      .+.+.|+||+|......    ....+  .-..+.+++|+|+....   +.......+....   ...-+|.||.|.....
T Consensus       183 ~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~gq---~av~~a~~F~~~~---~i~giIlTKlD~~~rg  256 (433)
T PRK10867        183 GYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTGQ---DAVNTAKAFNEAL---GLTGVILTKLDGDARG  256 (433)
T ss_pred             CCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccHH---HHHHHHHHHHhhC---CCCEEEEeCccCcccc
Confidence            35689999999532111    10111  12567889999987532   2223333333221   2345677999953211


Q ss_pred             cCCHHHHHHHHHHcCCeEEEEec
Q 030225          114 KVKNEEGELYAQENGLSFLETSA  136 (181)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~Sa  136 (181)
                          -.+.......++|+.+++.
T Consensus       257 ----G~alsi~~~~~~PI~fig~  275 (433)
T PRK10867        257 ----GAALSIRAVTGKPIKFIGT  275 (433)
T ss_pred             ----cHHHHHHHHHCcCEEEEeC
Confidence                1245556667788766643

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=96.66  E-value=0.0038  Score=47.66  Aligned_cols=108  Identities=19%  Similarity=0.178  Sum_probs=68.0

Q ss_pred             eEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChh---HHHHH--HHHHHHHHHhCCCCceEEEEEeCCCCcc--
Q 030225           39 VTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMD---SFERA--KKWVQELQRQGNPNLIMFLVANKVDLEE--  111 (181)
Q Consensus        39 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~~~--~~~~~~~~~~~~~~~p~ivi~nK~D~~~--  111 (181)
                      ..-+|.+.|.|||..|....-.-..+||+.++|+++.-.+   .|+.-  .+.-.++..- ..-...++++||.|-..  
T Consensus       155 e~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt-~gv~~lVv~vNKMddPtvn  233 (501)
T KOG0459|consen  155 ENKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT-AGVKHLIVLINKMDDPTVN  233 (501)
T ss_pred             cceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHh-hccceEEEEEEeccCCccC
Confidence            3447899999999988887766778899999999985422   23221  1111222221 23445778899999632  


Q ss_pred             cc----cCCHHHHHHHHHHcC------CeEEEEecCCCCCHHHHHH
Q 030225          112 KR----KVKNEEGELYAQENG------LSFLETSAKSAHNVNELFY  147 (181)
Q Consensus       112 ~~----~~~~~~~~~~~~~~~------~~~~~~Sa~~~~gi~~~~~  147 (181)
                      ..    +-..+....|.+..|      ..++++|..+|.++++..+
T Consensus       234 Ws~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~~  279 (501)
T KOG0459|consen  234 WSNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRTD  279 (501)
T ss_pred             cchhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhccc
Confidence            11    111233444555443      4689999999999987664

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.64  E-value=0.016  Score=45.36  Aligned_cols=91  Identities=18%  Similarity=0.135  Sum_probs=50.6

Q ss_pred             EEEEEEEeCCChhhhh----ccchhhcc---CCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccc
Q 030225           40 TIKFDIWDTAGQERYH----SLAPMYYR---GAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEK  112 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~----~~~~~~~~---~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~  112 (181)
                      .+.+.|+|++|.....    .....++.   ...-.++|++++-.  ...+...+..+...    .+.-+|.||.|... 
T Consensus       299 ~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~--~~~l~~~~~~f~~~----~~~~vI~TKlDet~-  371 (424)
T PRK05703        299 DCDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTK--YEDLKDIYKHFSRL----PLDGLIFTKLDETS-  371 (424)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCC--HHHHHHHHHHhCCC----CCCEEEEecccccc-
Confidence            3578999999964322    11223333   23466778887632  22222322233211    13457789999632 


Q ss_pred             ccCCHHHHHHHHHHcCCeEEEEecCCCCCH
Q 030225          113 RKVKNEEGELYAQENGLSFLETSAKSAHNV  142 (181)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  142 (181)
                         ..-.+..++...++|+.+++  +|.+|
T Consensus       372 ---~~G~i~~~~~~~~lPv~yit--~Gq~V  396 (424)
T PRK05703        372 ---SLGSILSLLIESGLPISYLT--NGQRV  396 (424)
T ss_pred             ---cccHHHHHHHHHCCCEEEEe--CCCCC
Confidence               22346677777888887774  45554

>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=96.61  E-value=0.033  Score=38.23  Aligned_cols=80  Identities=18%  Similarity=0.148  Sum_probs=41.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEE--eCC-ChhhhhccchhhccCCcEEEEE--EECC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIW--DTA-GQERYHSLAPMYYRGAAAAVVV--YDIT   75 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~--D~~-G~~~~~~~~~~~~~~~d~~i~v--~d~~   75 (181)
                      +|+|||||++.+.+...     ++.|.      +.+++..+.+..-  +.+ |+...-.+...++.+.+++++=  ...-
T Consensus        34 nGsGKSTLl~~l~Gl~~-----p~~G~------i~~~g~~i~~~~q~~~LSgGq~qrv~laral~~~p~lllLDEPts~L  102 (177)
T cd03222          34 NGTGKTTAVKILAGQLI-----PNGDN------DEWDGITPVYKPQYIDLSGGELQRVAIAAALLRNATFYLFDEPSAYL  102 (177)
T ss_pred             CCChHHHHHHHHHcCCC-----CCCcE------EEECCEEEEEEcccCCCCHHHHHHHHHHHHHhcCCCEEEEECCcccC
Confidence            58999999998886532     22221      1122222111111  133 3444445667778888866662  1122


Q ss_pred             ChhHHHHHHHHHHHHH
Q 030225           76 SMDSFERAKKWVQELQ   91 (181)
Q Consensus        76 ~~~s~~~~~~~~~~~~   91 (181)
                      |+.+...+..++..+.
T Consensus       103 D~~~~~~l~~~l~~~~  118 (177)
T cd03222         103 DIEQRLNAARAIRRLS  118 (177)
T ss_pred             CHHHHHHHHHHHHHHH
Confidence            4455555556665553

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.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.51  E-value=0.0095  Score=38.79  Aligned_cols=17  Identities=41%  Similarity=0.661  Sum_probs=14.1

Q ss_pred             CCCchhHHHHHHhhCCC
Q 030225            1 MGTGKTSLVLRFVKGQF   17 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~   17 (181)
                      .|+|||||++.+...-.
T Consensus        31 lGaGKTtl~~~l~~~lg   47 (133)
T TIGR00150        31 LGAGKTTLVQGLLQGLG   47 (133)
T ss_pred             CCCCHHHHHHHHHHHcC
Confidence            58999999999987543

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.

>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=96.48  E-value=0.0045  Score=42.08  Aligned_cols=127  Identities=20%  Similarity=0.255  Sum_probs=57.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeC-CCh----------------------hhhhcc
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDT-AGQ----------------------ERYHSL   57 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~-~G~----------------------~~~~~~   57 (181)
                      ||+|||||+++++..--.. ..+.-|  +.+....-++...-|.+.|. .|.                      +.+...
T Consensus         8 pG~GKTTll~k~i~~l~~~-~~~v~G--f~t~evr~~g~r~GF~iv~l~~g~~~~la~~~~~~~~~vgky~v~~e~fe~~   84 (168)
T PF03266_consen    8 PGVGKTTLLKKVIEELKKK-GLPVGG--FYTEEVRENGRRIGFDIVDLNSGEEAILARVDFRSGPRVGKYFVDLESFEEI   84 (168)
T ss_dssp             TTSSHHHHHHHHHHHHHHT-CGGEEE--EEEEEEETTSSEEEEEEEET-TS-EEEEEETTSS-SCECTTCEE-HHHHHCC
T ss_pred             CCCCHHHHHHHHHHHhhcc-CCccce--EEeecccCCCceEEEEEEECcCCCccccccccccccccCCCEEEcHHHHHHH
Confidence            7999999999988532110 112223  22333334444445555555 321                      111111


Q ss_pred             ----chhhccCCcEEEEEEECCChhHHHH-HHHHHHHHHHhCCCCceEEEEEeCC-CCcccccCCHHHHHHHHHHcCCeE
Q 030225           58 ----APMYYRGAAAAVVVYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKV-DLEEKRKVKNEEGELYAQENGLSF  131 (181)
Q Consensus        58 ----~~~~~~~~d~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~p~ivi~nK~-D~~~~~~~~~~~~~~~~~~~~~~~  131 (181)
                          ....+.++|  ++++|---  .++. ...|.+.+...-..++|++.++.+. +.        .-...+.+..++.+
T Consensus        85 ~~~~L~~~~~~~~--liviDEIG--~mEl~~~~F~~~v~~~l~s~~~vi~vv~~~~~~--------~~l~~i~~~~~~~i  152 (168)
T PF03266_consen   85 GLPALRNALSSSD--LIVIDEIG--KMELKSPGFREAVEKLLDSNKPVIGVVHKRSDN--------PFLEEIKRRPDVKI  152 (168)
T ss_dssp             CCCCCHHHHHCCH--EEEE---S--TTCCC-CHHHHHHHHHHCTTSEEEEE--SS--S--------CCHHHHHTTTTSEE
T ss_pred             HHHHHHhhcCCCC--EEEEeccc--hhhhcCHHHHHHHHHHHcCCCcEEEEEecCCCc--------HHHHHHHhCCCcEE
Confidence                122224566  66667332  1111 1233344444333567888877665 21        12344455557888


Q ss_pred             EEEecCCCCCH
Q 030225          132 LETSAKSAHNV  142 (181)
Q Consensus       132 ~~~Sa~~~~gi  142 (181)
                      ++++..+-+-+
T Consensus       153 ~~vt~~NRd~l  163 (168)
T PF03266_consen  153 FEVTEENRDAL  163 (168)
T ss_dssp             EE--TTTCCCH
T ss_pred             EEeChhHHhhH
Confidence            88876665544

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.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.48  E-value=0.04  Score=42.66  Aligned_cols=91  Identities=12%  Similarity=0.043  Sum_probs=50.5

Q ss_pred             EEEEEEeCCChhhhhcc----chhhc--cCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc
Q 030225           41 IKFDIWDTAGQERYHSL----APMYY--RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK  114 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~----~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~  114 (181)
                      +.+.|+||+|.......    ...++  ...+.+++|+|++-.  ...+..++..+..    -..-=+|+||.|...   
T Consensus       321 ~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk--~~d~~~i~~~F~~----~~idglI~TKLDET~---  391 (436)
T PRK11889        321 VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMK--SKDMIEIITNFKD----IHIDGIVFTKFDETA---  391 (436)
T ss_pred             CCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccC--hHHHHHHHHHhcC----CCCCEEEEEcccCCC---
Confidence            57899999996432211    12222  235678889987632  2223333333322    234567789999643   


Q ss_pred             CCHHHHHHHHHHcCCeEEEEecCCCCCHH
Q 030225          115 VKNEEGELYAQENGLSFLETSAKSAHNVN  143 (181)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  143 (181)
                       ..-.+...+...++|+.+++  +|+++.
T Consensus       392 -k~G~iLni~~~~~lPIsyit--~GQ~VP  417 (436)
T PRK11889        392 -SSGELLKIPAVSSAPIVLMT--DGQDVK  417 (436)
T ss_pred             -CccHHHHHHHHHCcCEEEEe--CCCCCC
Confidence             12234566667788876663  344443

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.46  E-value=0.041  Score=43.70  Aligned_cols=90  Identities=14%  Similarity=0.070  Sum_probs=47.6

Q ss_pred             EEEEEEeCCChhhhhc---cchhhccC---CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc
Q 030225           41 IKFDIWDTAGQERYHS---LAPMYYRG---AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK  114 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~---~~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~  114 (181)
                      ..+.++|++|......   .....+..   ..-.++|+|.+-..  ..+......+   . .....-+|+||.|...   
T Consensus       335 ~d~VLIDTaGr~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~~~--~~l~~i~~~f---~-~~~~~g~IlTKlDet~---  405 (484)
T PRK06995        335 KHIVLIDTIGMSQRDRMVSEQIAMLHGAGAPVKRLLLLNATSHG--DTLNEVVQAY---R-GPGLAGCILTKLDEAA---  405 (484)
T ss_pred             CCeEEeCCCCcChhhHHHHHHHHHHhccCCCCeeEEEEeCCCcH--HHHHHHHHHh---c-cCCCCEEEEeCCCCcc---
Confidence            3578999999432221   11112222   22367888887322  2222222222   1 2234566789999532   


Q ss_pred             CCHHHHHHHHHHcCCeEEEEecCCCCCH
Q 030225          115 VKNEEGELYAQENGLSFLETSAKSAHNV  142 (181)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  142 (181)
                       ..-.+..+....++++.+++  +|++|
T Consensus       406 -~~G~~l~i~~~~~lPI~yvt--~GQ~V  430 (484)
T PRK06995        406 -SLGGALDVVIRYKLPLHYVS--NGQRV  430 (484)
T ss_pred             -cchHHHHHHHHHCCCeEEEe--cCCCC
Confidence             22345666777788887773  56666

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.44  E-value=0.0014  Score=44.77  Aligned_cols=16  Identities=31%  Similarity=0.599  Sum_probs=14.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||||||||+++|+...
T Consensus        13 SG~GKsTl~k~L~~~~   28 (191)
T COG0194          13 SGVGKSTLVKALLEDD   28 (191)
T ss_pred             CCCCHHHHHHHHHhhc
Confidence            7999999999999766

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=96.43  E-value=0.0071  Score=47.53  Aligned_cols=78  Identities=21%  Similarity=0.237  Sum_probs=51.7

Q ss_pred             hhccchhhccCCcEEEEEEECCChhHHH--HHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeE
Q 030225           54 YHSLAPMYYRGAAAAVVVYDITSMDSFE--RAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSF  131 (181)
Q Consensus        54 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~  131 (181)
                      ++.+|. .+...|+++.++|+.++--|.  .+..++..+    .+.+..++++||.||....++  ..-..|....++++
T Consensus       165 WRQLWR-VlErSDivvqIVDARnPllfr~~dLe~Yvke~----d~~K~~~LLvNKaDLl~~~qr--~aWa~YF~~~ni~~  237 (562)
T KOG1424|consen  165 WRQLWR-VLERSDIVVQIVDARNPLLFRSPDLEDYVKEV----DPSKANVLLVNKADLLPPEQR--VAWAEYFRQNNIPV  237 (562)
T ss_pred             HHHHHH-HHhhcceEEEEeecCCccccCChhHHHHHhcc----ccccceEEEEehhhcCCHHHH--HHHHHHHHhcCceE
Confidence            445554 457899999999999875442  234444443    345678899999999542221  12234566678999


Q ss_pred             EEEecCC
Q 030225          132 LETSAKS  138 (181)
Q Consensus       132 ~~~Sa~~  138 (181)
                      ++-||..
T Consensus       238 vf~SA~~  244 (562)
T KOG1424|consen  238 VFFSALA  244 (562)
T ss_pred             EEEeccc
Confidence            9999886

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=96.43  E-value=0.0039  Score=45.99  Aligned_cols=50  Identities=16%  Similarity=0.135  Sum_probs=30.5

Q ss_pred             CCCchhHHHHHHhhCCC----CCccccceeeeEEEEE-EEECCeEEEEEEEeCCCh
Q 030225            1 MGTGKTSLVLRFVKGQF----FDFQESTIGAAFFTQV-LSLNEVTIKFDIWDTAGQ   51 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~----~~~~~~t~~~~~~~~~-~~~~~~~~~~~i~D~~G~   51 (181)
                      ||+|||||+|++.....    ....-.-.|+++.... +.+.+.. .+.+.||||-
T Consensus       152 PNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~rp-~vy~iDTPGi  206 (335)
T KOG2485|consen  152 PNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISHRP-PVYLIDTPGI  206 (335)
T ss_pred             CCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEeccCC-ceEEecCCCc
Confidence            89999999999865322    1222233344444443 4444444 3679999994

>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=96.37  E-value=0.031  Score=36.19  Aligned_cols=16  Identities=38%  Similarity=0.445  Sum_probs=14.0

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+|||+|++.+...-
T Consensus        28 ~G~GKT~l~~~i~~~~   43 (151)
T cd00009          28 PGTGKTTLARAIANEL   43 (151)
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            7999999999998654

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.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.36  E-value=0.029  Score=46.84  Aligned_cols=92  Identities=12%  Similarity=0.089  Sum_probs=50.0

Q ss_pred             EEEEEEeCCChhhhh----ccchhh--ccCCcEEEEEEECCCh-hHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccc
Q 030225           41 IKFDIWDTAGQERYH----SLAPMY--YRGAAAAVVVYDITSM-DSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR  113 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~----~~~~~~--~~~~d~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~  113 (181)
                      ..+.|+||+|.....    ......  ....+-.++|+|++-. +.+.++.   ..+.... .-.+.=+|+||.|...  
T Consensus       264 ~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i~---~~f~~~~-~~~i~glIlTKLDEt~--  337 (767)
T PRK14723        264 KHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLNEVV---HAYRHGA-GEDVDGCIITKLDEAT--  337 (767)
T ss_pred             CCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHHHHHHH---HHHhhcc-cCCCCEEEEeccCCCC--
Confidence            468899999943211    111111  2235567889998742 3343332   2232211 0124567789999643  


Q ss_pred             cCCHHHHHHHHHHcCCeEEEEecCCCCCH
Q 030225          114 KVKNEEGELYAQENGLSFLETSAKSAHNV  142 (181)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  142 (181)
                        ..=.+..+....++|+.+++  +|++|
T Consensus       338 --~~G~iL~i~~~~~lPI~yit--~GQ~V  362 (767)
T PRK14723        338 --HLGPALDTVIRHRLPVHYVS--TGQKV  362 (767)
T ss_pred             --CccHHHHHHHHHCCCeEEEe--cCCCC
Confidence              12234556667788887774  45555

>KOG3929 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.35  E-value=0.0011  Score=47.62  Aligned_cols=150  Identities=15%  Similarity=0.165  Sum_probs=74.7

Q ss_pred             CCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECC--eEEEEEEEeCCChhhhhccch-----hhccCCcEEEEEEEC
Q 030225            2 GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNE--VTIKFDIWDTAGQERYHSLAP-----MYYRGAAAAVVVYDI   74 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~~~~i~D~~G~~~~~~~~~-----~~~~~~d~~i~v~d~   74 (181)
                      |-||||++++.+...-.+ ..++....|..-. ...+  .+--.++|+.+|......+..     .-++. -.+|++.|+
T Consensus        53 n~~~tt~I~~~FdR~e~~-~~ptlaLEYtygR-R~~g~~~kdiaN~WELGgg~~~~~LLsVPit~~~l~~-~slIL~LDl  129 (363)
T KOG3929|consen   53 NGGKTTIILRCFDRDEPP-KPPTLALEYTYGR-RAKGHNPKDIANFWELGGGTSLLDLLSVPITGDTLRT-FSLILVLDL  129 (363)
T ss_pred             CCceeEeehhhcCcccCC-CCCceeeeeehhh-hccCCCchhHHHHHHhcCCccHHHHhcCcccccchhh-hhheeeeec
Confidence            457888988877654333 2244433321111 1122  233468999998654333221     12222 357888999


Q ss_pred             CChhH-HHHHHHHHHHHHHh-------------------------------------CCCCceEEEEEeCCCCcccccCC
Q 030225           75 TSMDS-FERAKKWVQELQRQ-------------------------------------GNPNLIMFLVANKVDLEEKRKVK  116 (181)
Q Consensus        75 ~~~~s-~~~~~~~~~~~~~~-------------------------------------~~~~~p~ivi~nK~D~~~~~~~~  116 (181)
                      ++++. |..+...++.++.+                                     ..-..|++||+.|.|.-..-+..
T Consensus       130 s~p~~~W~t~E~~~~~~R~~vd~~~~~~~k~~~~L~E~mrqR~~~rvgqd~~d~e~~dP~P~PV~IVgsKYDvFq~Fese  209 (363)
T KOG3929|consen  130 SKPNDLWPTMENLLQATRSHVDKVIMKLGKTNAKLVEEMRQRIWNRVGQDHPDHELIDPFPVPVVIVGSKYDVFQDFESE  209 (363)
T ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHhcccCCCchhhcCCCCCceEEeccchhhhccccHH
Confidence            98764 33232222221100                                     01148999999999964322211


Q ss_pred             H-----HHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225          117 N-----EEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       117 ~-----~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      .     .-.+..+-.+|..++..|++-..=.+-+.+.+.+...
T Consensus       210 kRkH~C~~LRf~Ah~yGaaLlmfSskMe~l~K~~r~~i~HlaF  252 (363)
T KOG3929|consen  210 KRKHICKTLRFVAHYYGAALLMFSSKMEALLKKIRGVINHLAF  252 (363)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHhhHHHHHHHHhhHHHhhc
Confidence            1     1122334445666677777754433444444444333

>PHA02518 ParA-like protein; Provisional

Probab=96.29  E-value=0.032  Score=39.05  Aligned_cols=67  Identities=13%  Similarity=0.077  Sum_probs=40.8

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCCh--hHHHHHHHHHHHHHHhCCCCce-EEEEEeCCCC
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSM--DSFERAKKWVQELQRQGNPNLI-MFLVANKVDL  109 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~--~s~~~~~~~~~~~~~~~~~~~p-~ivi~nK~D~  109 (181)
                      .+.+.|+|+||..  .......+..+|.+|++...+..  .....+..++..+.... ...| ..++.|+.+.
T Consensus        76 ~~d~viiD~p~~~--~~~~~~~l~~aD~viip~~ps~~~~~~~~~~~~~~~~~~~~~-~~~~~~~iv~n~~~~  145 (211)
T PHA02518         76 GYDYVVVDGAPQD--SELARAALRIADMVLIPVQPSPFDIWAAPDLVELIKARQEVT-DGLPKFAFIISRAIK  145 (211)
T ss_pred             cCCEEEEeCCCCc--cHHHHHHHHHCCEEEEEeCCChhhHHHHHHHHHHHHHHHhhC-CCCceEEEEEeccCC
Confidence            4678999999864  33456677889999999887632  22333444444433322 2333 4566677653

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.29  E-value=0.019  Score=44.60  Aligned_cols=86  Identities=16%  Similarity=0.070  Sum_probs=46.1

Q ss_pred             EEEEEEEeCCChhhhhc----cchhhcc-----CCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           40 TIKFDIWDTAGQERYHS----LAPMYYR-----GAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~----~~~~~~~-----~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      .+.+.++||+|......    .+..++.     ...-.++|+|++-..  +.+.......    ..-.+-=+|+||.|-.
T Consensus       299 ~~D~VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~--~~~~~~~~~f----~~~~~~glIlTKLDEt  372 (432)
T PRK12724        299 GSELILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSY--HHTLTVLKAY----ESLNYRRILLTKLDEA  372 (432)
T ss_pred             CCCEEEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCH--HHHHHHHHHh----cCCCCCEEEEEcccCC
Confidence            45778999999642111    1122221     234678899988532  2222222222    1123456778999963


Q ss_pred             ccccCCHHHHHHHHHHcCCeEEEEe
Q 030225          111 EKRKVKNEEGELYAQENGLSFLETS  135 (181)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~S  135 (181)
                      ..    .-.+...+...++|+.+++
T Consensus       373 ~~----~G~il~i~~~~~lPI~ylt  393 (432)
T PRK12724        373 DF----LGSFLELADTYSKSFTYLS  393 (432)
T ss_pred             CC----ccHHHHHHHHHCCCEEEEe
Confidence            21    1234555666788876664

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.16  E-value=0.033  Score=42.81  Aligned_cols=92  Identities=14%  Similarity=0.116  Sum_probs=49.5

Q ss_pred             EEEEEEEeCCChhhhhc----cchhhcc--CCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccc
Q 030225           40 TIKFDIWDTAGQERYHS----LAPMYYR--GAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR  113 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~----~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~  113 (181)
                      .+.+.|+||+|......    ....+..  ..+.+++|.+++  ....++...+...   . .-.+--+|+||.|...  
T Consensus       285 ~~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag--~~~~d~~~i~~~f---~-~l~i~glI~TKLDET~--  356 (407)
T PRK12726        285 CVDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSG--MKSADVMTILPKL---A-EIPIDGFIITKMDETT--  356 (407)
T ss_pred             CCCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCc--ccHHHHHHHHHhc---C-cCCCCEEEEEcccCCC--
Confidence            36789999999743221    1122222  346667777764  2223333332222   1 2234567789999632  


Q ss_pred             cCCHHHHHHHHHHcCCeEEEEecCCCCCHH
Q 030225          114 KVKNEEGELYAQENGLSFLETSAKSAHNVN  143 (181)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  143 (181)
                        ..=.+...+...++|+.+++  +|++|.
T Consensus       357 --~~G~~Lsv~~~tglPIsylt--~GQ~Vp  382 (407)
T PRK12726        357 --RIGDLYTVMQETNLPVLYMT--DGQNIT  382 (407)
T ss_pred             --CccHHHHHHHHHCCCEEEEe--cCCCCC
Confidence              22244556667788876664  344444

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=96.08  E-value=0.0041  Score=34.70  Aligned_cols=14  Identities=29%  Similarity=0.465  Sum_probs=12.1

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|||||||++++.-
T Consensus        32 nGsGKSTllDAi~~   45 (62)
T PF13555_consen   32 NGSGKSTLLDAIQT   45 (62)
T ss_pred             CCCCHHHHHHHHHH
Confidence            58999999999864

>KOG2484 consensus GTPase [General function prediction only]

Probab=96.05  E-value=0.017  Score=44.08  Aligned_cols=76  Identities=18%  Similarity=0.162  Sum_probs=46.8

Q ss_pred             hhhccchhhccCCcEEEEEEECCChhHHH--HHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHH---HHc
Q 030225           53 RYHSLAPMYYRGAAAAVVVYDITSMDSFE--RAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYA---QEN  127 (181)
Q Consensus        53 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~---~~~  127 (181)
                      .|.......+..+|++|.|.|+.||.+-.  ++.+|+..  .  ..++..|+|+||+|+..     .+....|.   +..
T Consensus       135 aY~ke~rkvve~sDVVleVlDARDPlgtR~~~vE~~V~~--~--~gnKkLILVLNK~DLVP-----rEv~e~Wl~YLr~~  205 (435)
T KOG2484|consen  135 AYDKEFRKVVEASDVVLEVLDARDPLGTRCPEVEEAVLQ--A--HGNKKLILVLNKIDLVP-----REVVEKWLVYLRRE  205 (435)
T ss_pred             HHHHHHHHHHhhhheEEEeeeccCCCCCCChhHHHHHHh--c--cCCceEEEEeehhccCC-----HHHHHHHHHHHHhh
Confidence            44445556677899999999999987633  33333221  2  24588999999999944     34444443   333


Q ss_pred             CCeEEEEecC
Q 030225          128 GLSFLETSAK  137 (181)
Q Consensus       128 ~~~~~~~Sa~  137 (181)
                      +..+.+..+.
T Consensus       206 ~ptv~fkast  215 (435)
T KOG2484|consen  206 GPTVAFKAST  215 (435)
T ss_pred             CCcceeeccc
Confidence            4444444433

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.03  E-value=0.057  Score=41.60  Aligned_cols=105  Identities=17%  Similarity=0.124  Sum_probs=57.2

Q ss_pred             EEEEEEEeCCChhhhhcc----chhhccC--CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccc
Q 030225           40 TIKFDIWDTAGQERYHSL----APMYYRG--AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR  113 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~----~~~~~~~--~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~  113 (181)
                      .+.+.++||.|...+...    ...++..  ..-.-+|++++.  ....+...+..+...    ..--+|+||.|-..  
T Consensus       281 ~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~--K~~dlkei~~~f~~~----~i~~~I~TKlDET~--  352 (407)
T COG1419         281 DCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATT--KYEDLKEIIKQFSLF----PIDGLIFTKLDETT--  352 (407)
T ss_pred             cCCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCc--chHHHHHHHHHhccC----CcceeEEEcccccC--
Confidence            457899999997544332    2333332  234455677763  334455555555332    23456789999532  


Q ss_pred             cCCHHHHHHHHHHcCCeEEEEecCCCCCHHH----H-HHHHHHHHHhh
Q 030225          114 KVKNEEGELYAQENGLSFLETSAKSAHNVNE----L-FYEIAKRLAEV  156 (181)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~----~-~~~l~~~~~~~  156 (181)
                        ..-.....+.+.+.|+.+++  +|.+|.+    . -.||++.+..-
T Consensus       353 --s~G~~~s~~~e~~~PV~YvT--~GQ~VPeDI~va~~~~Lv~~~~g~  396 (407)
T COG1419         353 --SLGNLFSLMYETRLPVSYVT--NGQRVPEDIVVANPDYLVRRILGT  396 (407)
T ss_pred             --chhHHHHHHHHhCCCeEEEe--CCCCCCchhhhcChHHHHHHHhcc
Confidence              33345556666777776663  3443322    1 24556555554

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=96.00  E-value=0.15  Score=36.42  Aligned_cols=62  Identities=29%  Similarity=0.301  Sum_probs=39.3

Q ss_pred             EEEEEeC-CChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCC
Q 030225           42 KFDIWDT-AGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL  109 (181)
Q Consensus        42 ~~~i~D~-~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~  109 (181)
                      .+.++|| +|-+.|.   +...+++|.+|.|.|.+ ..++...++..+...+.  .-+++.+|+||.|-
T Consensus       135 e~VivDtEAGiEHfg---Rg~~~~vD~vivVvDpS-~~sl~taeri~~L~~el--g~k~i~~V~NKv~e  197 (255)
T COG3640         135 EVVIVDTEAGIEHFG---RGTIEGVDLVIVVVDPS-YKSLRTAERIKELAEEL--GIKRIFVVLNKVDE  197 (255)
T ss_pred             cEEEEecccchhhhc---cccccCCCEEEEEeCCc-HHHHHHHHHHHHHHHHh--CCceEEEEEeeccc
Confidence            4555555 2333222   33467899999999987 35666555544433333  23789999999985

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.93  E-value=0.17  Score=39.15  Aligned_cols=91  Identities=12%  Similarity=0.001  Sum_probs=51.1

Q ss_pred             EEEEEEEeCCChhhhhc----cchhhccC---CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccc
Q 030225           40 TIKFDIWDTAGQERYHS----LAPMYYRG---AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEK  112 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~----~~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~  112 (181)
                      .+.+.++||+|......    ....++..   ..-.++|.|++-.  ...+...+....    .-.+-=+|+||.|-.. 
T Consensus       254 ~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~--~~~~~~~~~~~~----~~~~~~~I~TKlDet~-  326 (388)
T PRK12723        254 DFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTK--TSDVKEIFHQFS----PFSYKTVIFTKLDETT-  326 (388)
T ss_pred             CCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCC--HHHHHHHHHHhc----CCCCCEEEEEeccCCC-
Confidence            46789999999643221    11223332   2257889998854  233333333332    2234567789999533 


Q ss_pred             ccCCHHHHHHHHHHcCCeEEEEecCCCCCH
Q 030225          113 RKVKNEEGELYAQENGLSFLETSAKSAHNV  142 (181)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  142 (181)
                         ..-.+..++...++|+.+++  +|+++
T Consensus       327 ---~~G~~l~~~~~~~~Pi~yit--~Gq~v  351 (388)
T PRK12723        327 ---CVGNLISLIYEMRKEVSYVT--DGQIV  351 (388)
T ss_pred             ---cchHHHHHHHHHCCCEEEEe--CCCCC
Confidence               22234556666788876663  56666

>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=95.89  E-value=0.0051  Score=39.09  Aligned_cols=15  Identities=27%  Similarity=0.516  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      |||||||+.+.|...
T Consensus         8 ~gsGKST~a~~La~~   22 (121)
T PF13207_consen    8 PGSGKSTLAKELAER   22 (121)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999999864

...

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.81  E-value=0.037  Score=42.35  Aligned_cols=52  Identities=15%  Similarity=0.146  Sum_probs=31.7

Q ss_pred             CeEEEEEEEeCCChhhhh-----ccch-hhccCCcEEEEEEECCChhHHHHHHHHHHH
Q 030225           38 EVTIKFDIWDTAGQERYH-----SLAP-MYYRGAAAAVVVYDITSMDSFERAKKWVQE   89 (181)
Q Consensus        38 ~~~~~~~i~D~~G~~~~~-----~~~~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~   89 (181)
                      ..++.+.|.||+|.....     -+.. .-.-..|-+|||.|++-...-+..-+-++.
T Consensus       181 ke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiGQaae~Qa~aFk~  238 (483)
T KOG0780|consen  181 KENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQAAEAQARAFKE  238 (483)
T ss_pred             hcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEeccccHhHHHHHHHHHH
Confidence            456889999999953211     1110 112358999999999876554444333333

>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=95.63  E-value=0.008  Score=34.35  Aligned_cols=15  Identities=20%  Similarity=0.541  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      |||||||+.++|...
T Consensus         8 ~gsGKst~~~~l~~~   22 (69)
T cd02019           8 SGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999988854

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.

>COG3911 Predicted ATPase [General function prediction only]

Probab=95.59  E-value=0.0089  Score=39.50  Aligned_cols=19  Identities=32%  Similarity=0.555  Sum_probs=16.3

Q ss_pred             CCCchhHHHHHHhhCCCCC
Q 030225            1 MGTGKTSLVLRFVKGQFFD   19 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~   19 (181)
                      ||+||||||+.|-...+..
T Consensus        18 pGaGKTtLL~aLa~~Gfat   36 (183)
T COG3911          18 PGAGKTTLLAALARAGFAT   36 (183)
T ss_pred             CCCcHHHHHHHHHHcCcee
Confidence            8999999999998877643

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=95.57  E-value=0.02  Score=41.82  Aligned_cols=50  Identities=26%  Similarity=0.292  Sum_probs=32.6

Q ss_pred             CCCchhHHHHHHhhCCCCCcc----ccceeeeEEEEEEEECCeEEEEEEEeCCC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ----ESTIGAAFFTQVLSLNEVTIKFDIWDTAG   50 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~----~~t~~~~~~~~~~~~~~~~~~~~i~D~~G   50 (181)
                      .|-|||||++.|++.++..+.    .|++.....+..+.-.+..+++.+.||.|
T Consensus        51 Tg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvG  104 (406)
T KOG3859|consen   51 TGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVG  104 (406)
T ss_pred             CCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecc
Confidence            478999999999987764332    23444333333333345567789999998

>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=95.54  E-value=0.13  Score=33.88  Aligned_cols=58  Identities=16%  Similarity=0.279  Sum_probs=31.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEe-CC-ChhhhhccchhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWD-TA-GQERYHSLAPMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D-~~-G~~~~~~~~~~~~~~~d~~i~   70 (181)
                      +|+|||||++.+.+...     +..|.      +.+++. ..+.+.- .+ |+...-.+...++.+++++++
T Consensus        35 nGsGKStLl~~l~G~~~-----~~~G~------i~~~~~-~~i~~~~~lS~G~~~rv~laral~~~p~illl   94 (144)
T cd03221          35 NGAGKSTLLKLIAGELE-----PDEGI------VTWGST-VKIGYFEQLSGGEKMRLALAKLLLENPNLLLL   94 (144)
T ss_pred             CCCCHHHHHHHHcCCCC-----CCceE------EEECCe-EEEEEEccCCHHHHHHHHHHHHHhcCCCEEEE
Confidence            58999999999887542     22221      122222 1222211 33 333444456777778876665

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.

>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional

Probab=95.48  E-value=0.15  Score=37.92  Aligned_cols=41  Identities=17%  Similarity=0.207  Sum_probs=23.8

Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCC
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVD  108 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D  108 (181)
                      .+.+.+++|+.+.+.+......+..+...   +.++.++.-..+
T Consensus        55 ~~~~av~iD~r~~~~~~~~~~~~~~L~~~---g~~~~iI~L~a~   95 (288)
T PRK05416         55 IRKVAVVIDVRSRPFFDDLPEALDELRER---GIDVRVLFLDAS   95 (288)
T ss_pred             CCCeEEEEccCchhhHHHHHHHHHHHHHc---CCcEEEEEEECC
Confidence            35678888988765445566666666554   233333444444

>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=95.48  E-value=0.0084  Score=38.32  Aligned_cols=15  Identities=27%  Similarity=0.512  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||++.|...
T Consensus         7 ~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    7 PGSGKTTIAKELAER   21 (129)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998755

...

>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=95.47  E-value=0.0089  Score=39.12  Aligned_cols=15  Identities=40%  Similarity=0.656  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||++.|...
T Consensus         8 pgsGKSt~a~~l~~~   22 (143)
T PF13671_consen    8 PGSGKSTLAKRLAKR   22 (143)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            899999999998743

...

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.29  E-value=0.0099  Score=41.13  Aligned_cols=16  Identities=19%  Similarity=0.557  Sum_probs=14.0

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||||||||+++|+...
T Consensus        13 sG~GK~tl~~~l~~~~   28 (186)
T PRK14737         13 AGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCCCHHHHHHHHHhcC
Confidence            7999999999998653

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=95.23  E-value=0.17  Score=39.07  Aligned_cols=88  Identities=18%  Similarity=0.196  Sum_probs=53.1

Q ss_pred             ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHH----cCCeEEEEecC
Q 030225           62 YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE----NGLSFLETSAK  137 (181)
Q Consensus        62 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~----~~~~~~~~Sa~  137 (181)
                      +...|++|-|+|+.||-.-.  -..+........+++..++|+||+||...+     ....|.+.    +.--.|..|..
T Consensus       211 iDSSDVvvqVlDARDPmGTr--c~~ve~ylkke~phKHli~vLNKvDLVPtw-----vt~~Wv~~lSkeyPTiAfHAsi~  283 (572)
T KOG2423|consen  211 IDSSDVVVQVLDARDPMGTR--CKHVEEYLKKEKPHKHLIYVLNKVDLVPTW-----VTAKWVRHLSKEYPTIAFHASIN  283 (572)
T ss_pred             hcccceeEEeeeccCCcccc--cHHHHHHHhhcCCcceeEEEeeccccccHH-----HHHHHHHHHhhhCcceeeehhhc
Confidence            55689999999999864311  123333344445889999999999995422     23344333    33334666766


Q ss_pred             CCCCHHHHHHHHHHHHHhhC
Q 030225          138 SAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       138 ~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +..|=-.+++.|.+ +...+
T Consensus       284 nsfGKgalI~llRQ-f~kLh  302 (572)
T KOG2423|consen  284 NSFGKGALIQLLRQ-FAKLH  302 (572)
T ss_pred             CccchhHHHHHHHH-HHhhc
Confidence            66775555554433 33444

>PRK01889 GTPase RsgA; Reviewed

Probab=95.11  E-value=0.018  Score=43.98  Aligned_cols=16  Identities=31%  Similarity=0.530  Sum_probs=14.0

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+|||||+|.|.+..
T Consensus       204 sgvGKStLin~L~g~~  219 (356)
T PRK01889        204 SGVGKSTLVNALLGEE  219 (356)
T ss_pred             CCccHHHHHHHHHHhc
Confidence            7999999999998744

>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

Probab=95.08  E-value=0.36  Score=35.33  Aligned_cols=79  Identities=23%  Similarity=0.270  Sum_probs=52.1

Q ss_pred             EEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHH
Q 030225           42 KFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE  121 (181)
Q Consensus        42 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~  121 (181)
                      ++.|+|+|..-  .-..-..+.++|.+|+|--.+ +..+.++++.++.+...   +.|..+|+||.++..      .+.+
T Consensus       165 ~~~IIDsaaG~--gCpVi~sl~~aD~ai~VTEPT-p~glhD~kr~~el~~~f---~ip~~iViNr~~~g~------s~ie  232 (284)
T COG1149         165 DLLIIDSAAGT--GCPVIASLKGADLAILVTEPT-PFGLHDLKRALELVEHF---GIPTGIVINRYNLGD------SEIE  232 (284)
T ss_pred             ceeEEecCCCC--CChHHHhhccCCEEEEEecCC-ccchhHHHHHHHHHHHh---CCceEEEEecCCCCc------hHHH
Confidence            45566665321  111234578899999997776 34566666766666554   789999999996532      1567


Q ss_pred             HHHHHcCCeEE
Q 030225          122 LYAQENGLSFL  132 (181)
Q Consensus       122 ~~~~~~~~~~~  132 (181)
                      +++.+.+++++
T Consensus       233 ~~~~e~gi~il  243 (284)
T COG1149         233 EYCEEEGIPIL  243 (284)
T ss_pred             HHHHHcCCCee
Confidence            88888887654

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=95.06  E-value=0.0047  Score=47.16  Aligned_cols=72  Identities=17%  Similarity=0.168  Sum_probs=41.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhh--hccchhhccCCcEEEEEEECCChh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY--HSLAPMYYRGAAAAVVVYDITSMD   78 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--~~~~~~~~~~~d~~i~v~d~~~~~   78 (181)
                      ||+||||++|.|-..+....- |..|.+-....+..   .-++-++||||-.--  .......+   -+++-|=.+.+++
T Consensus       316 PNvGKSSiINTLR~KkVCkvA-PIpGETKVWQYItL---mkrIfLIDcPGvVyps~dset~ivL---kGvVRVenv~~pe  388 (572)
T KOG2423|consen  316 PNVGKSSIINTLRKKKVCKVA-PIPGETKVWQYITL---MKRIFLIDCPGVVYPSSDSETDIVL---KGVVRVENVKNPE  388 (572)
T ss_pred             CCCchHHHHHHHhhccccccc-CCCCcchHHHHHHH---HhceeEecCCCccCCCCCchHHHHh---hceeeeeecCCHH
Confidence            899999999999887764322 33332211111111   125679999996422  23334444   3556777777765


Q ss_pred             H
Q 030225           79 S   79 (181)
Q Consensus        79 s   79 (181)
                      .
T Consensus       389 ~  389 (572)
T KOG2423|consen  389 D  389 (572)
T ss_pred             H
Confidence            4

>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=94.97  E-value=0.015  Score=37.80  Aligned_cols=16  Identities=25%  Similarity=0.351  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|+|||||++.+.+..
T Consensus        20 nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   20 NGSGKSTLLKALAGLL   35 (137)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCccccceeeecccc
Confidence            5899999999888654

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 ....

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=94.91  E-value=0.015  Score=39.63  Aligned_cols=15  Identities=40%  Similarity=0.731  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||+++++..
T Consensus        15 sgsGKTTLi~~li~~   29 (173)
T PRK10751         15 SGTGKTTLLKKLIPA   29 (173)
T ss_pred             CCChHHHHHHHHHHH
Confidence            699999999999865

>PF14331 ImcF-related_N: ImcF-related N-terminal domain

Probab=94.90  E-value=0.13  Score=37.76  Aligned_cols=94  Identities=20%  Similarity=0.232  Sum_probs=52.7

Q ss_pred             cCCcEEEEEEECCCh-----h--HHH----HHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHH--HHHHHHcCC
Q 030225           63 RGAAAAVVVYDITSM-----D--SFE----RAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG--ELYAQENGL  129 (181)
Q Consensus        63 ~~~d~~i~v~d~~~~-----~--s~~----~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~--~~~~~~~~~  129 (181)
                      +..+++|+++|+.+-     +  .+.    .++.-+..+...-.-..|+.+++||+|+...-.......  ....+-+|+
T Consensus        24 ~PlnGvil~vs~~~Ll~~~~~~r~l~~~a~~lR~rL~el~~~lg~~~PVYvv~Tk~D~l~GF~ef~~~L~~~~r~q~lG~  103 (266)
T PF14331_consen   24 QPLNGVILTVSVDDLLNADEAERELEALARALRQRLEELQRTLGVRLPVYVVFTKCDLLPGFDEFFSDLSEEEREQVLGF  103 (266)
T ss_pred             CCCCEEEEEEEHHHHhcCChhhhHHHHHHHHHHHHHHHHHHHhCCCCCeEeeeECCCcccCHHHHHHhCCHHHHhCCccc
Confidence            346999999998742     1  111    233344445555557899999999999865322111111  111223455


Q ss_pred             eEEEEecCCCCC---HHHHHHHHHHHHHhh
Q 030225          130 SFLETSAKSAHN---VNELFYEIAKRLAEV  156 (181)
Q Consensus       130 ~~~~~Sa~~~~g---i~~~~~~l~~~~~~~  156 (181)
                      .+-.-.......   +.+.|+.|...+...
T Consensus       104 t~~~~~~~~~~~~~~~~~~~~~l~~~L~~~  133 (266)
T PF14331_consen  104 TFPYDEDADGDAWAWFDEEFDELVARLNAR  133 (266)
T ss_pred             ccCCccccccchHHHHHHHHHHHHHHHHHH
Confidence            433333344444   777777777766654

>PRK08233 hypothetical protein; Provisional

Probab=94.90  E-value=0.016  Score=39.57  Aligned_cols=15  Identities=40%  Similarity=0.563  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||.++|...
T Consensus        12 ~GsGKtTla~~L~~~   26 (182)
T PRK08233         12 SGGGKTTLTERLTHK   26 (182)
T ss_pred             CCCCHHHHHHHHHhh
Confidence            799999999999753

>PRK04195 replication factor C large subunit; Provisional

Probab=94.84  E-value=0.58  Score=37.48  Aligned_cols=16  Identities=38%  Similarity=0.451  Sum_probs=13.9

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+||||+++.+...-
T Consensus        48 pG~GKTtla~ala~el   63 (482)
T PRK04195         48 PGVGKTSLAHALANDY   63 (482)
T ss_pred             CCCCHHHHHHHHHHHc
Confidence            7999999999997654

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=94.83  E-value=0.016  Score=41.19  Aligned_cols=16  Identities=25%  Similarity=0.297  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      |||||||||+-+-+-.
T Consensus        40 SGSGKSTLLniig~ld   55 (226)
T COG1136          40 SGSGKSTLLNLLGGLD   55 (226)
T ss_pred             CCCCHHHHHHHHhccc
Confidence            7999999999876544

>PRK14738 gmk guanylate kinase; Provisional

Probab=94.76  E-value=0.016  Score=40.69  Aligned_cols=25  Identities=8%  Similarity=0.230  Sum_probs=17.6

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          130 SFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       130 ~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      .++.+++-  ..++++.+.+.+.+.+.
T Consensus       171 ~~~iId~~--~~~e~v~~~i~~~l~~~  195 (206)
T PRK14738        171 DYVVVNPE--DRLDEAVAQIMAIISAE  195 (206)
T ss_pred             CEEEECCC--CCHHHHHHHHHHHHHHH
Confidence            45555543  36889999888888765

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=94.75  E-value=0.12  Score=39.05  Aligned_cols=16  Identities=31%  Similarity=0.457  Sum_probs=13.9

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.|+..-
T Consensus       153 tGSGKTTll~aL~~~i  168 (323)
T PRK13833        153 TGSGKTTLANAVIAEI  168 (323)
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            6999999999998654

>PRK07261 topology modulation protein; Provisional

Probab=94.70  E-value=0.019  Score=39.07  Aligned_cols=15  Identities=27%  Similarity=0.561  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||.+.|...
T Consensus         9 ~GsGKSTla~~l~~~   23 (171)
T PRK07261          9 SGSGKSTLARKLSQH   23 (171)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998753

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=94.63  E-value=0.02  Score=41.10  Aligned_cols=15  Identities=27%  Similarity=0.324  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||+|.+.+-
T Consensus        38 SGcGKSTLLriiAGL   52 (248)
T COG1116          38 SGCGKSTLLRLIAGL   52 (248)
T ss_pred             CCCCHHHHHHHHhCC
Confidence            799999999988763

>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=94.62  E-value=0.021  Score=35.72  Aligned_cols=13  Identities=46%  Similarity=0.787  Sum_probs=11.7

Q ss_pred             CCCchhHHHHHHh
Q 030225            1 MGTGKTSLVLRFV   13 (181)
Q Consensus         1 ~~~GKttLl~~l~   13 (181)
                      ||+|||||++.+.
T Consensus        24 SGsGKSTLl~~l~   36 (107)
T cd00820          24 SGIGKTELALELI   36 (107)
T ss_pred             CCCCHHHHHHHhh
Confidence            6999999999876

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

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=94.58  E-value=0.027  Score=36.87  Aligned_cols=15  Identities=33%  Similarity=0.680  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.|...
T Consensus         8 sGsGKstl~~~L~~~   22 (137)
T cd00071           8 SGVGKSTLLKRLLEE   22 (137)
T ss_pred             CCCCHHHHHHHHHhc
Confidence            699999999999864

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.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=94.56  E-value=0.023  Score=36.44  Aligned_cols=19  Identities=26%  Similarity=0.238  Sum_probs=15.4

Q ss_pred             CCCchhHHHHHHhhCCCCC
Q 030225            1 MGTGKTSLVLRFVKGQFFD   19 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~   19 (181)
                      ||+||||+++.+...-...
T Consensus        11 ~G~GKTtl~~~l~~~~~~~   29 (148)
T smart00382       11 PGSGKTTLARALARELGPP   29 (148)
T ss_pred             CCCcHHHHHHHHHhccCCC
Confidence            7999999999998665433

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.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=94.56  E-value=0.26  Score=34.71  Aligned_cols=110  Identities=14%  Similarity=0.210  Sum_probs=56.0

Q ss_pred             CCCchhHHHHHHhh---CCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh---hhhc-----cchhhccCCcEEE
Q 030225            1 MGTGKTSLVLRFVK---GQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE---RYHS-----LAPMYYRGAAAAV   69 (181)
Q Consensus         1 ~~~GKttLl~~l~~---~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~---~~~~-----~~~~~~~~~d~~i   69 (181)
                      |||||||+.+-|..   ++...    ++         ....+.....+||-.-.-   .|+.     .........+-.+
T Consensus        10 PgsGKTtfakeLak~L~~~i~~----vi---------~l~kdy~~~i~~DEslpi~ke~yres~~ks~~rlldSalkn~~   76 (261)
T COG4088          10 PGSGKTTFAKELAKELRQEIWR----VI---------HLEKDYLRGILWDESLPILKEVYRESFLKSVERLLDSALKNYL   76 (261)
T ss_pred             CCCCchHHHHHHHHHHHHhhhh----cc---------ccchhhhhheecccccchHHHHHHHHHHHHHHHHHHHHhcceE
Confidence            89999999887753   22111    11         111112234567765421   1111     1112222334456


Q ss_pred             EEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc--------ccccCCHHHHHHHHHHc
Q 030225           70 VVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE--------EKRKVKNEEGELYAQEN  127 (181)
Q Consensus        70 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~--------~~~~~~~~~~~~~~~~~  127 (181)
                      +.+|.++  -+...++.+......  ..++..+|-.++-+.        .....+.+...++...+
T Consensus        77 VIvDdtN--YyksmRrqL~ceak~--~~tt~ciIyl~~plDtc~rrN~ergepip~Evl~qly~Rf  138 (261)
T COG4088          77 VIVDDTN--YYKSMRRQLACEAKE--RKTTWCIIYLRTPLDTCLRRNRERGEPIPEEVLRQLYDRF  138 (261)
T ss_pred             EEEeccc--HHHHHHHHHHHHHHh--cCCceEEEEEccCHHHHHHhhccCCCCCCHHHHHHHHHhh
Confidence            6667664  344444444444333  467888887777652        23456666666666654

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=94.54  E-value=0.022  Score=38.90  Aligned_cols=15  Identities=27%  Similarity=0.255  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||++.|...
T Consensus        10 sGsGKttl~~~l~~~   24 (179)
T TIGR02322        10 SGAGKDTLLDYARAR   24 (179)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998764

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.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=94.52  E-value=0.022  Score=39.62  Aligned_cols=15  Identities=27%  Similarity=0.541  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||++.|.+.
T Consensus         8 ~GsGKSTl~~~l~~~   22 (198)
T cd02023           8 SGSGKTTVAEEIIEQ   22 (198)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998764

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.52  E-value=0.021  Score=40.20  Aligned_cols=24  Identities=25%  Similarity=0.123  Sum_probs=19.9

Q ss_pred             EEecCCCCCHHHHHHHHHHHHHhh
Q 030225          133 ETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       133 ~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      .+||++.+-+.|+++.+.+.+.+-
T Consensus       163 PTSALDPElv~EVL~vm~~LA~eG  186 (240)
T COG1126         163 PTSALDPELVGEVLDVMKDLAEEG  186 (240)
T ss_pred             CcccCCHHHHHHHHHHHHHHHHcC
Confidence            679999999999999888876653

>TIGR00235 udk uridine kinase

Probab=94.49  E-value=0.023  Score=39.95  Aligned_cols=15  Identities=27%  Similarity=0.512  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||++.|.+.
T Consensus        15 sGsGKSTl~~~l~~~   29 (207)
T TIGR00235        15 SGSGKTTVARKIYEQ   29 (207)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999999753

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=94.48  E-value=0.023  Score=40.41  Aligned_cols=15  Identities=13%  Similarity=0.118  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||++.|.+.
T Consensus         8 sGSGKTTla~~L~~~   22 (220)
T cd02025           8 VAVGKSTTARVLQAL   22 (220)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999988753

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PF05879 RHD3: Root hair defective 3 GTP-binding protein (RHD3); InterPro: IPR008803 This family consists of several eukaryotic root hair defective 3 like GTP-binding proteins

Probab=94.47  E-value=0.085  Score=44.35  Aligned_cols=20  Identities=25%  Similarity=0.381  Sum_probs=17.3

Q ss_pred             CCchhHHHHHHhhCCCCCcc
Q 030225            2 GTGKTSLVLRFVKGQFFDFQ   21 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~~   21 (181)
                      ++|||||||.|++..|....
T Consensus         5 ssgkstlln~lf~t~f~~m~   24 (742)
T PF05879_consen    5 SSGKSTLLNHLFGTQFDVMD   24 (742)
T ss_pred             CCcHHHHHHHHHCCCccccc
Confidence            68999999999998887643

It has been speculated that the RHD3 protein is a member of a novel class of GTP-binding proteins that is widespread in eukaryotes and required for regulated cell enlargement []. The family also contains the homologous Saccharomyces cerevisiae synthetic construct enhancement of YOP1 (SEY1) protein which is involved in membrane trafficking [].; GO: 0016817 hydrolase activity, acting on acid anhydrides

>PRK08118 topology modulation protein; Reviewed

Probab=94.45  E-value=0.024  Score=38.46  Aligned_cols=15  Identities=27%  Similarity=0.437  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||.++|...
T Consensus        10 ~GsGKSTlak~L~~~   24 (167)
T PRK08118         10 GGSGKSTLARQLGEK   24 (167)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998854

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=94.37  E-value=0.022  Score=38.36  Aligned_cols=15  Identities=33%  Similarity=0.417  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      |++|||||++.|...
T Consensus         8 ~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    8 PSTGKTTLIEALAAR   22 (163)
T ss_dssp             TTSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHc
Confidence            689999999999865

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=94.37  E-value=0.023  Score=38.24  Aligned_cols=14  Identities=36%  Similarity=0.700  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|||||||+.++..
T Consensus        11 k~SGKTTLie~lv~   24 (161)
T COG1763          11 KNSGKTTLIEKLVR   24 (161)
T ss_pred             CCCChhhHHHHHHH
Confidence            58999999999964

>PTZ00293 thymidine kinase; Provisional

Probab=94.33  E-value=0.38  Score=33.96  Aligned_cols=42  Identities=10%  Similarity=0.126  Sum_probs=25.6

Q ss_pred             cCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           63 RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        63 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      .+.|+  +.+|  +..-|..+..+...+..   .++|+++.|...|-..
T Consensus        76 ~~~dv--I~ID--EaQFf~~i~~~~~~l~~---~g~~VivaGLd~Df~~  117 (211)
T PTZ00293         76 KNYDV--IAID--EGQFFPDLVEFSEAAAN---LGKIVIVAALDGTFQR  117 (211)
T ss_pred             cCCCE--EEEE--chHhhHhHHHHHHHHHH---CCCeEEEEecCccccc
Confidence            44553  4455  33445555556555543   5789999998888544

>cd01131 PilT Pilus retraction ATPase PilT

Probab=94.32  E-value=0.19  Score=35.10  Aligned_cols=16  Identities=19%  Similarity=0.382  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +||||||+++.++..-
T Consensus        10 tGSGKTTll~~ll~~~   25 (198)
T cd01131          10 TGSGKSTTLAAMIDYI   25 (198)
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            6999999999987654

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.

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=94.28  E-value=0.22  Score=37.02  Aligned_cols=47  Identities=13%  Similarity=0.270  Sum_probs=28.8

Q ss_pred             hhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHHhC-CCCceEEEEEeC
Q 030225           60 MYYRGAAAAVVVYDITS---MDSFERAKKWVQELQRQG-NPNLIMFLVANK  106 (181)
Q Consensus        60 ~~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~-~~~~p~ivi~nK  106 (181)
                      ..++...+=++++|--.   ..+....+..++.++..+ ....|++.+|++
T Consensus       139 ~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~  189 (302)
T PF05621_consen  139 RLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTR  189 (302)
T ss_pred             HHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccH
Confidence            45677788888988442   123344444555554433 267899999875

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>KOG1533 consensus Predicted GTPase [General function prediction only]

Probab=94.28  E-value=0.038  Score=39.45  Aligned_cols=67  Identities=15%  Similarity=0.095  Sum_probs=36.1

Q ss_pred             EEEEEEeCCChhhhhcc----c--hhhccCCcEEEEEEECC------ChhHHHH-HHHHHHHHHHhCCCCceEEEEEeCC
Q 030225           41 IKFDIWDTAGQERYHSL----A--PMYYRGAAAAVVVYDIT------SMDSFER-AKKWVQELQRQGNPNLIMFLVANKV  107 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~----~--~~~~~~~d~~i~v~d~~------~~~s~~~-~~~~~~~~~~~~~~~~p~ivi~nK~  107 (181)
                      -+..+.|+||+.+....    +  -.+++.-+.-+.++.+.      ||..|-. +..-+..+..   -..|-+=++.|+
T Consensus        97 ~~Y~lFDcPGQVELft~h~~l~~I~~~Lek~~~rl~~V~LiDs~ycs~p~~~iS~lL~sl~tMl~---melphVNvlSK~  173 (290)
T KOG1533|consen   97 DHYVLFDCPGQVELFTHHDSLNKIFRKLEKLDYRLVAVNLIDSHYCSDPSKFISSLLVSLATMLH---MELPHVNVLSKA  173 (290)
T ss_pred             CcEEEEeCCCcEEEEeccchHHHHHHHHHHcCceEEEEEeeeceeeCChHHHHHHHHHHHHHHHh---hcccchhhhhHh
Confidence            35779999998653221    1  12233455444444433      4555443 2222222322   356788888999


Q ss_pred             CCc
Q 030225          108 DLE  110 (181)
Q Consensus       108 D~~  110 (181)
                      |+.
T Consensus       174 Dl~  176 (290)
T KOG1533|consen  174 DLL  176 (290)
T ss_pred             HHH
Confidence            973

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=94.23  E-value=0.028  Score=38.80  Aligned_cols=21  Identities=5%  Similarity=-0.029  Sum_probs=15.9

Q ss_pred             CCCCHHHHHHHHHHHHHhhCC
Q 030225          138 SAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus       138 ~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +...++++.+.+...+...++
T Consensus       159 ~~~s~ee~~~~i~~~l~~~~~  179 (186)
T PRK10078        159 NDGSLRQSVDTLLTLLHLSQK  179 (186)
T ss_pred             CCCCHHHHHHHHHHHHhhcCc
Confidence            444699999999888876654

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=94.22  E-value=0.031  Score=36.79  Aligned_cols=15  Identities=27%  Similarity=0.600  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.|+..
T Consensus         9 ~~sGKTTl~~~Li~~   23 (140)
T PF03205_consen    9 KNSGKTTLIRKLINE   23 (140)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            589999999999864

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=94.21  E-value=0.24  Score=36.32  Aligned_cols=16  Identities=25%  Similarity=0.393  Sum_probs=13.7

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +||||||+++.++..-
T Consensus        89 tGSGKTT~l~all~~i  104 (264)
T cd01129          89 TGSGKTTTLYSALSEL  104 (264)
T ss_pred             CCCcHHHHHHHHHhhh
Confidence            5999999999988654

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=94.21  E-value=0.031  Score=35.87  Aligned_cols=16  Identities=38%  Similarity=0.654  Sum_probs=13.9

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+|||++++++....
T Consensus        13 ~G~GKT~~~~~~~~~~   28 (131)
T PF13401_consen   13 PGSGKTTLIKRLARQL   28 (131)
T ss_dssp             TTSSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            7999999999998654

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=94.17  E-value=0.029  Score=38.51  Aligned_cols=14  Identities=29%  Similarity=0.472  Sum_probs=12.6

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||++++|..
T Consensus        12 ~GsGKsTl~~~l~~   25 (188)
T TIGR01360        12 PGSGKGTQCEKIVE   25 (188)
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999973

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.

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=94.12  E-value=0.3  Score=37.80  Aligned_cols=15  Identities=40%  Similarity=0.530  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||++++.+...
T Consensus        64 ~GtGKT~l~~~v~~~   78 (394)
T PRK00411         64 PGTGKTTTVKKVFEE   78 (394)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999999864

>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=94.11  E-value=0.034  Score=35.63  Aligned_cols=16  Identities=38%  Similarity=0.414  Sum_probs=13.9

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+|||+|++.+...-
T Consensus         7 ~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    7 PGTGKTTLARALAQYL   22 (132)
T ss_dssp             TTSSHHHHHHHHHHHT
T ss_pred             CCCCeeHHHHHHHhhc
Confidence            7999999999988654

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 ....

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=94.11  E-value=0.031  Score=38.58  Aligned_cols=16  Identities=31%  Similarity=0.414  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+++.-
T Consensus        34 tGSGKTTll~aL~~~i   49 (186)
T cd01130          34 TGSGKTTLLNALLAFI   49 (186)
T ss_pred             CCCCHHHHHHHHHhhc
Confidence            6999999999988643

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.

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=94.10  E-value=0.18  Score=38.40  Aligned_cols=16  Identities=25%  Similarity=0.513  Sum_probs=13.8

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.|++.-
T Consensus       171 tGSGKTTll~aLl~~i  186 (344)
T PRK13851        171 TGSGKTTMSKTLISAI  186 (344)
T ss_pred             CCccHHHHHHHHHccc
Confidence            5999999999998654

>PRK05480 uridine/cytidine kinase; Provisional

Probab=94.08  E-value=0.032  Score=39.24  Aligned_cols=15  Identities=27%  Similarity=0.454  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||++.|...
T Consensus        15 sGsGKTTl~~~l~~~   29 (209)
T PRK05480         15 SGSGKTTVASTIYEE   29 (209)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998764

>PRK11545 gntK gluconate kinase 1; Provisional

Probab=94.06  E-value=0.033  Score=37.65  Aligned_cols=16  Identities=19%  Similarity=0.366  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||||||||++.|.+.-
T Consensus         4 sGsGKSTla~~la~~l   19 (163)
T PRK11545          4 SGSGKSAVASEVAHQL   19 (163)
T ss_pred             CCCcHHHHHHHHHHHh
Confidence            7999999999887654

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=94.05  E-value=0.034  Score=37.96  Aligned_cols=14  Identities=43%  Similarity=0.679  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+|||+|++++..
T Consensus        33 ~G~GKT~ll~~~~~   46 (185)
T PF13191_consen   33 SGSGKTSLLRALLD   46 (185)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998874

>PRK13505 formate--tetrahydrofolate ligase; Provisional

Probab=94.03  E-value=0.79  Score=37.02  Aligned_cols=72  Identities=14%  Similarity=0.202  Sum_probs=52.8

Q ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEe--cCCCCCHHHHHHHHHHHHHh
Q 030225           79 SFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETS--AKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        79 s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S--a~~~~gi~~~~~~l~~~~~~  155 (181)
                      .+.++.+.++.++..   +.|++|++||.|.....+  .+..++++.+.++++..+.  +.=|+|-.++-+.+++.+.+
T Consensus       357 Gl~NL~RHIenvr~F---GvPvVVAINKFd~DTe~E--i~~I~~~c~e~Gv~va~~~~~~~Gg~Gai~LA~aVveA~~~  430 (557)
T PRK13505        357 GFANLERHIENIRKF---GVPVVVAINKFVTDTDAE--IAALKELCEELGVEVALSEVWAKGGEGGVELAEKVVELIEE  430 (557)
T ss_pred             HHHHHHHHHHHHHHc---CCCEEEEEeCCCCCCHHH--HHHHHHHHHHcCCCEEEecccccCCcchHHHHHHHHHHHhc
Confidence            456677777777654   789999999999744222  3456789999999876443  44578888888888887763

>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]

Probab=93.98  E-value=0.14  Score=38.65  Aligned_cols=19  Identities=32%  Similarity=0.242  Sum_probs=15.2

Q ss_pred             CCCchhHHHHHHhhCCCCC
Q 030225            1 MGTGKTSLVLRFVKGQFFD   19 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~   19 (181)
                      .|||||||+|.|+......
T Consensus       182 TGSGKTTlLNal~~~i~~~  200 (355)
T COG4962         182 TGSGKTTLLNALSGFIDSD  200 (355)
T ss_pred             CCCCHHHHHHHHHhcCCCc
Confidence            4899999999999765433

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=93.96  E-value=0.036  Score=38.53  Aligned_cols=14  Identities=43%  Similarity=0.733  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||||||||.++|..
T Consensus         8 sgSGKTTla~~L~~   21 (194)
T PF00485_consen    8 SGSGKTTLAKRLAQ   21 (194)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999864

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=93.96  E-value=0.034  Score=38.10  Aligned_cols=14  Identities=36%  Similarity=0.449  Sum_probs=12.0

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|+|||||++.+..
T Consensus        30 nG~GKSTLl~~il~   43 (176)
T cd03238          30 SGSGKSTLVNEGLY   43 (176)
T ss_pred             CCCCHHHHHHHHhh
Confidence            59999999998863

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=93.95  E-value=0.033  Score=39.35  Aligned_cols=16  Identities=25%  Similarity=0.293  Sum_probs=13.7

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|+|||||++.+.+..
T Consensus        39 nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          39 SGSGKSTLLNILGGLD   54 (218)
T ss_pred             CCCCHHHHHHHHhCCc
Confidence            5899999999998653

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=93.94  E-value=0.034  Score=39.10  Aligned_cols=16  Identities=25%  Similarity=0.268  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|+|||||++.+.+..
T Consensus        36 nGsGKSTLl~~l~G~~   51 (211)
T cd03225          36 NGSGKSTLLRLLNGLL   51 (211)
T ss_pred             CCCCHHHHHHHHhcCC
Confidence            5999999999988653

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PTZ00301 uridine kinase; Provisional

Probab=93.93  E-value=0.035  Score=39.19  Aligned_cols=14  Identities=43%  Similarity=0.636  Sum_probs=11.9

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||||||||.++|..
T Consensus        12 SgSGKTTla~~l~~   25 (210)
T PTZ00301         12 SGSGKSSLSTNIVS   25 (210)
T ss_pred             CcCCHHHHHHHHHH
Confidence            79999999987753

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=93.90  E-value=0.2  Score=37.81  Aligned_cols=15  Identities=40%  Similarity=0.649  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.|+..
T Consensus       157 tGSGKTTll~aL~~~  171 (319)
T PRK13894        157 TGSGKTTLVNAIINE  171 (319)
T ss_pred             CCCCHHHHHHHHHHh
Confidence            699999999999964

>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ

Probab=93.90  E-value=0.68  Score=33.21  Aligned_cols=66  Identities=12%  Similarity=0.153  Sum_probs=42.8

Q ss_pred             EEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           42 KFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        42 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      .+.++|+|+..  .......+..+|.++++...+ ..++..+.+.+..+........+..++.|+.|..
T Consensus       116 D~viiD~pp~~--~~~~~~~l~~ad~vii~~~~~-~~s~~~~~~~~~~l~~~~~~~~~~~iv~n~~~~~  181 (246)
T TIGR03371       116 DWVLIDVPRGP--SPITRQALAAADLVLVVVNAD-AACYATLHQQALALFAGSGPRIGPHFLINQFDPA  181 (246)
T ss_pred             CEEEEECCCCc--hHHHHHHHHhCCeEEEEeCCC-HHHHHHHHHHHHHHhhcccccccceEEeeccCcc
Confidence            68899999853  334456678899999999874 4555555533333333222344577889998853

Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>PRK04040 adenylate kinase; Provisional

Probab=93.90  E-value=0.037  Score=38.39  Aligned_cols=15  Identities=27%  Similarity=0.465  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      |||||||+++.|...
T Consensus        11 pG~GKtt~~~~l~~~   25 (188)
T PRK04040         11 PGVGKTTVLNKALEK   25 (188)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            899999999988654

>KOG1534 consensus Putative transcription factor FET5 [Transcription]

Probab=93.90  E-value=0.26  Score=34.75  Aligned_cols=114  Identities=16%  Similarity=0.184  Sum_probs=58.3

Q ss_pred             EEEEEeCCChhhhhc---cchhh---ccC---CcEEEEEEECCC-hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           42 KFDIWDTAGQERYHS---LAPMY---YRG---AAAAVVVYDITS-MDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        42 ~~~i~D~~G~~~~~~---~~~~~---~~~---~d~~i~v~d~~~-~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      .+.+.|+||+-+...   ..+..   +++   .-.++|+.|..= -++...+-..+..+..-.....|.+-|.+|.|+..
T Consensus        99 dylifDcPGQIELytH~pVm~~iv~hl~~~~F~~c~Vylldsqf~vD~~KfiSG~lsAlsAMi~lE~P~INvlsKMDLlk  178 (273)
T KOG1534|consen   99 DYLIFDCPGQIELYTHLPVMPQIVEHLKQWNFNVCVVYLLDSQFLVDSTKFISGCLSALSAMISLEVPHINVLSKMDLLK  178 (273)
T ss_pred             CEEEEeCCCeeEEeecChhHHHHHHHHhcccCceeEEEEeccchhhhHHHHHHHHHHHHHHHHHhcCcchhhhhHHHHhh
Confidence            467999999843221   11111   111   124455555331 12222222333333222224788999999999843


Q ss_pred             ccc-----------------------CC--H----HHHHHHHHHcC-CeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          112 KRK-----------------------VK--N----EEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       112 ~~~-----------------------~~--~----~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ...                       .+  .    .....+..+++ +.++.....+.+.++.++..|-.+++=
T Consensus       179 ~~~k~~l~~Fl~~d~~~l~~~~~~~~~s~Kf~~L~~~i~~~v~d~~Mv~FlPl~~~~eeSi~~iL~~ID~aiQy  252 (273)
T KOG1534|consen  179 DKNKKELERFLNPDEYLLLEDSEINLRSPKFKKLTKCIAQLVDDYSMVNFLPLDSSDEESINIILSYIDDAIQY  252 (273)
T ss_pred             hhhHHHHHHhcCCchhhhhcccccccccHHHHHHHHHHHHHhccccceeeeecCCCCHHHHHHHHHHHHHHHHh
Confidence            210                       00  0    01112233344 357888888888898888887766543

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=93.87  E-value=0.035  Score=38.36  Aligned_cols=16  Identities=31%  Similarity=0.436  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|+|||||++.+.+..
T Consensus        27 nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        27 NGAGKSTLLLHLNGLL   42 (190)
T ss_pred             CCCCHHHHHHHHhCCC
Confidence            5999999999887643

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=93.87  E-value=0.088  Score=35.85  Aligned_cols=16  Identities=25%  Similarity=0.268  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+|||||++.+..--
T Consensus        38 SG~GKStllk~va~Li   53 (223)
T COG4619          38 SGCGKSTLLKIVASLI   53 (223)
T ss_pred             CCccHHHHHHHHHhcc
Confidence            6999999999887543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	181
2efc_B	181	Ara7-GdpATVPS9A Length = 181		4e-62
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		3e-55
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		1e-54
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		2e-54
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		2e-54
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		6e-54
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		6e-54
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		9e-54
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		9e-54
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		9e-54
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		9e-54
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		9e-54
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		4e-53
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		1e-52
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		3e-40
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		2e-37
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		1e-34
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		4e-34
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		9e-34
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		2e-33
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		3e-33
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		4e-33
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		4e-33
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		4e-33
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		8e-33
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		1e-32
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		1e-32
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		6e-32
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		8e-32
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		1e-31
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		1e-31
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		9e-31
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		9e-31
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		2e-30
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		2e-30
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		5e-30
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		1e-29
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		1e-29
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		2e-29
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		2e-29
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		3e-29
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		3e-29
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		4e-29
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		5e-29
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		7e-29
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		7e-29
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		8e-29
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		8e-29
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		8e-29
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		9e-29
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		1e-28
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		1e-28
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		1e-28
4fmc_B	171	Espg-Rab1 Complex Length = 171		1e-28
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		1e-28
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		1e-28
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		1e-28
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		2e-28
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		3e-28
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		3e-28
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		6e-28
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		1e-27
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		1e-27
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		1e-27
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		1e-27
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		2e-27
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		2e-27
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		5e-27
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		6e-27
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		1e-26
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		1e-26
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		2e-26
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		3e-26
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		2e-25
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		4e-25
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		5e-25
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		2e-24
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		9e-24
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		2e-23
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		3e-23
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		1e-22
1vg1_A	185	Gdp-bound Rab7 Length = 185		2e-22
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		3e-22
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		5e-22
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		5e-22
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		1e-21
4fmc_F	117	Espg-Rab1 Complex Length = 117		6e-21
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		8e-21
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		9e-20
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		2e-19
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		3e-19
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		4e-19
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		8e-19
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		1e-18
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		1e-18
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		1e-18
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		2e-18
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		2e-18
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		2e-18
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		3e-18
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		4e-18
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		4e-18
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		5e-18
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		6e-18
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		7e-18
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		9e-18
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		9e-18
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		1e-17
2bku_A	177	Kap95p:rangtp Complex Length = 177		1e-17
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		1e-17
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		1e-17
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		1e-17
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		1e-17
1byu_A	216	Canine Gdp-Ran Length = 216		1e-17
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		2e-17
3icq_B	171	Karyopherin Nuclear State Length = 171		2e-17
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		3e-17
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		5e-17
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		5e-17
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		8e-17
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		9e-17
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		9e-17
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		1e-16
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		1e-16
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		2e-16
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-16
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		3e-16
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		3e-16
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-16
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		3e-16
4q21_A	189	Molecular Switch For Signal Transduction: Structura		3e-16
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		4e-16
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		5e-16
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		1e-15
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		2e-15
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		2e-15
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		3e-15
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		3e-15
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		6e-15
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		6e-15
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		6e-15
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		6e-15
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		7e-15
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		8e-15
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		8e-15
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		9e-15
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		9e-15
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		1e-14
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-14
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		1e-14
1wq1_R	166	Ras-Rasgap Complex Length = 166		1e-14
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		1e-14
6q21_A	171	Molecular Switch For Signal Transduction: Structura		1e-14
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		1e-14
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		2e-14
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		2e-14
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		2e-14
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		2e-14
1s1c_A	183	Crystal Structure Of The Complex Between The Human		2e-14
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		2e-14
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		2e-14
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		2e-14
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		2e-14
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		2e-14
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		2e-14
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		2e-14
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		2e-14
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		2e-14
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		2e-14
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		2e-14
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		2e-14
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		3e-14
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		3e-14
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		3e-14
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		3e-14
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		3e-14
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		4e-14
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		4e-14
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		4e-14
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		4e-14
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		4e-14
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		4e-14
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		5e-14
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		5e-14
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		6e-14
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		7e-14
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		7e-14
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		9e-14
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		9e-14
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		1e-13
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		1e-13
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-13
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		1e-13
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		1e-13
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		1e-13
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		1e-13
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		2e-13
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		2e-13
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		2e-13
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		2e-13
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		2e-13
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		2e-13
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		2e-13
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		2e-13
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		2e-13
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		2e-13
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		3e-13
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		3e-13
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		5e-13
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		6e-13
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		7e-13
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		8e-13
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		1e-12
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		3e-12
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		4e-12
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		3e-11
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		1e-10
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		7e-10
1mh1_A	186	Small G-Protein Length = 186		1e-09
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		1e-09
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		1e-09
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		1e-09
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		2e-09
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		2e-09
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		3e-09
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		4e-09
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		5e-09
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		5e-09
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		5e-09
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		5e-09
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		5e-09
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		5e-09
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		1e-08
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		1e-08
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		1e-08
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		2e-08
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		2e-08
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		2e-08
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		2e-08
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		2e-08
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		2e-08
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		2e-08
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		2e-08
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		3e-08
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		3e-08
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		3e-08
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		4e-08
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		6e-08
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		7e-08
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		8e-08
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		1e-07
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		1e-07
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		2e-07
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		2e-07
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		2e-07
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		2e-07
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		3e-07
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		3e-07
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		3e-07
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		3e-07
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		3e-07
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		3e-07
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		3e-07
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		3e-07
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		4e-07
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		4e-07
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		4e-07
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		4e-07
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		4e-07
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		4e-07
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		4e-07
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		4e-07
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		7e-07
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		8e-07
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		1e-06
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		1e-06
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		1e-06
2kb0_A	178	Cdc42(T35a) Length = 178		1e-06
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		1e-06
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		1e-06
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		2e-06
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		2e-06
3cbq_A	195	Crystal Structure Of The Human Rem2 Gtpase With Bou		2e-06
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		3e-06
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		4e-06
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		4e-06
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		4e-06
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		4e-06
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		5e-06
3q85_A	169	Crystal Structure Of Rem2 G-Domain -Gtp Analog Comp		5e-06
4aii_A	180	Crystal Structure Of The Rat Rem2 Gtpase - G Domain		6e-06
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		6e-06
3lvr_E	497	The Crystal Structure Of Asap3 In Complex With Arf6		9e-06
3pcr_B	162	Structure Of Espg-Arf6 Complex Length = 162		1e-05
1e0s_A	174	Small G Protein Arf6-Gdp Length = 174		2e-05
2a5d_A	175	Structural Basis For The Activation Of Cholera Toxi		2e-05
4fme_C	160	Espg-Rab1-Arf6 Complex Length = 160		2e-05
3n5c_A	162	Crystal Structure Of Arf6delta13 Complexed With Gdp		2e-05
2a5g_A	175	Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length		1e-04
3vhx_A	172	The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesi		1e-04
2w83_A	165	Crystal Structure Of The Arf6 Gtpase In Complex Wit		1e-04
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		4e-04

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score =  233 bits (594), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 106/159 (66%), Positives = 128/159 (80%)
Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           +G GK+SLVLRFVK QF +FQESTIGAAFF+Q L++N+ T+KF+IWDTAGQERYHSLAPM
Sbjct: 21  VGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPM 80
Query: 61  YYRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRG       +D+T+  SFERAKKWVQELQ QGNPN++M L  NK DL + RKV  E+ 
Sbjct: 81  YYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDA 140
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
           + YAQENGL F+ETSAK+A NV E+FYEIA+RL  V P+
Sbjct: 141 QTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPT 179

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score =  210 bits (535), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 95/152 (62%), Positives = 118/152 (77%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+SLVLRFVKGQF ++QESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMY
Sbjct: 13  AVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMY 72
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT+ D+F RAK WV+ELQRQ +PN+++ L  NK DL  KR V+ +E +
Sbjct: 73  YRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQ 132
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            YA +N L F+ETSAK+A NVNE+F  IAK+L
Sbjct: 133 AYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 164

>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 = 96/162 (59%), Positives = 121/162 (74%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+SLVLRFVKGQF ++QESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMY
Sbjct: 18  AVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCLDDTTVKFEIWDTAGQERYHSLAPMY 77
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT+ ++F RAK WV+ELQRQ +P++++ L  NK DL  KR V+ EE +
Sbjct: 78  YRGAQAAIVVYDITNQETFARAKTWVKELQRQASPSIVIALAGNKADLANKRMVEYEEAQ 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTG 163
            YA +N L F+ETSAK+A NVN+LF  IAK+L +  P    G
Sbjct: 138 AYADDNSLLFMETSAKTAMNVNDLFLAIAKKLPKSEPQNLGG 179

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score =  207 bits (528), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 94/152 (61%), Positives = 117/152 (76%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+SLVLRFVKGQF ++QESTI AAF TQ + L++ T+KF+IWDTAGQERYHSLAPMY
Sbjct: 15  AVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMY 74
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT+ D+F RAK WV+ELQRQ +PN+++ L  NK DL  KR V+ +E +
Sbjct: 75  YRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQ 134
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            YA +N L F+ETSAK+A NVNE+F  IAK+L
Sbjct: 135 AYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score =  207 bits (527), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 94/152 (61%), Positives = 117/152 (76%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+SLVLRFVKGQF ++QESTIGAAF TQ + L++ T+KF+IWDTAG ERYHSLAPMY
Sbjct: 15  AVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLERYHSLAPMY 74
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT+ D+F RAK WV+ELQRQ +PN+++ L  NK DL  KR V+ +E +
Sbjct: 75  YRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQ 134
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            YA +N L F+ETSAK+A NVNE+F  IAK+L
Sbjct: 135 AYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score =  206 bits (524), Expect = 6e-54,   Method: Compositional matrix adjust.
 Identities = 95/152 (62%), Positives = 117/152 (76%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+SLVLRFVKGQF +FQESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMY
Sbjct: 17  AVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMY 76
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT+ +SF RAK WV+ELQRQ +PN+++ L  NK DL  KR V  +E +
Sbjct: 77  YRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQ 136
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            YA +N L F+ETSAK++ NVNE+F  IAK+L
Sbjct: 137 SYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 168

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score =  206 bits (524), Expect = 6e-54,   Method: Compositional matrix adjust.
 Identities = 95/152 (62%), Positives = 117/152 (76%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+SLVLRFVKGQF +FQESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMY
Sbjct: 16  AVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMY 75
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT+ +SF RAK WV+ELQRQ +PN+++ L  NK DL  KR V  +E +
Sbjct: 76  YRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQ 135
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            YA +N L F+ETSAK++ NVNE+F  IAK+L
Sbjct: 136 SYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score =  205 bits (522), Expect = 9e-54,   Method: Compositional matrix adjust.
 Identities = 95/151 (62%), Positives = 117/151 (77%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GK+SLVLRFVKGQF +FQESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMYY
Sbjct: 17  VGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYY 76
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
           RG       YDIT+ +SF RAK WV+ELQRQ +PN+++ L  NK DL  KR V  +E + 
Sbjct: 77  RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 123 YAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           YA +N L F+ETSAK++ NVNE+F  IAK+L
Sbjct: 137 YADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  205 bits (522), Expect = 9e-54,   Method: Compositional matrix adjust.
 Identities = 95/151 (62%), Positives = 117/151 (77%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GK+SLVLRFVKGQF +FQESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMYY
Sbjct: 17  VGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYY 76
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
           RG       YDIT+ +SF RAK WV+ELQRQ +PN+++ L  NK DL  KR V  +E + 
Sbjct: 77  RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 123 YAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           YA +N L F+ETSAK++ NVNE+F  IAK+L
Sbjct: 137 YADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  205 bits (522), Expect = 9e-54,   Method: Compositional matrix adjust.
 Identities = 95/151 (62%), Positives = 117/151 (77%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GK+SLVLRFVKGQF +FQESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMYY
Sbjct: 17  VGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYY 76
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
           RG       YDIT+ +SF RAK WV+ELQRQ +PN+++ L  NK DL  KR V  +E + 
Sbjct: 77  RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 123 YAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           YA +N L F+ETSAK++ NVNE+F  IAK+L
Sbjct: 137 YADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  205 bits (522), Expect = 9e-54,   Method: Compositional matrix adjust.
 Identities = 95/151 (62%), Positives = 117/151 (77%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GK+SLVLRFVKGQF +FQESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMYY
Sbjct: 17  VGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYY 76
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
           RG       YDIT+ +SF RAK WV+ELQRQ +PN+++ L  NK DL  KR V  +E + 
Sbjct: 77  RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 123 YAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           YA +N L F+ETSAK++ NVNE+F  IAK+L
Sbjct: 137 YADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  205 bits (522), Expect = 9e-54,   Method: Compositional matrix adjust.
 Identities = 95/151 (62%), Positives = 117/151 (77%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GK+SLVLRFVKGQF +FQESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMYY
Sbjct: 17  VGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYY 76
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
           RG       YDIT+ +SF RAK WV+ELQRQ +PN+++ L  NK DL  KR V  +E + 
Sbjct: 77  RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 123 YAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           YA +N L F+ETSAK++ NVNE+F  IAK+L
Sbjct: 137 YADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score =  203 bits (516), Expect = 4e-53,   Method: Compositional matrix adjust.
 Identities = 94/152 (61%), Positives = 116/152 (76%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+SLVLRFVKGQF +FQESTIGAAF TQ + L++ T+KF+IWDTAG ERYHSLAPMY
Sbjct: 15  AVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLERYHSLAPMY 74
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT+ +SF RAK WV+ELQRQ +PN+++ L  NK DL  KR V  +E +
Sbjct: 75  YRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQ 134
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            YA +N L F+ETSAK++ NVNE+F  IAK+L
Sbjct: 135 SYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 166

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score =  202 bits (513), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 94/152 (61%), Positives = 115/152 (75%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+SLVLRFVKGQF +FQESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAP Y
Sbjct: 17  AVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPXY 76
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT+ +SF RAK WV+ELQRQ +PN+++ L  NK DL  KR V  +E +
Sbjct: 77  YRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQ 136
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            YA +N L F ETSAK++ NVNE+F  IAK+L
Sbjct: 137 SYADDNSLLFXETSAKTSXNVNEIFXAIAKKL 168

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score =  160 bits (406), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 80/155 (51%), Positives = 108/155 (69%), Gaps = 3/155 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+S+VLRFV   F + +E TIGAAF TQ +++NE T+KF+IWDTAGQER+ SLAP Y
Sbjct: 13  AVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXY 72
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVD-LEE--KRKVKNE 118
           YR        YD+T   SF +A+ WV+EL  Q + ++I+ LV NK+D L+E  +RKV  E
Sbjct: 73  YRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVARE 132
Query: 119 EGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           EGE  A+E GL F ETSAK+  NVN++F  I +++
Sbjct: 133 EGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI 167

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score =  151 bits (381), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 73/157 (46%), Positives = 100/157 (63%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+S+V RFV+  F      TIGA+F T+ +       KF IWDTAGQER+HSLAPMY
Sbjct: 33  GVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMY 92
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT  DSF   KKWV+EL+  G  N++M +  NK DL + R+V  ++ +
Sbjct: 93  YRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAK 152
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP 158
            YA+  G   +ETSAK+A N+ ELF  I++++  ++P
Sbjct: 153 EYAESIGAIVVETSAKNAINIEELFQGISRQIPPLDP 189

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score =  142 bits (358), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 69/152 (45%), Positives = 97/152 (63%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+S+V RFV+  F      TIGA+F T+ +       KF IWDTAGQER+ +LAPMY
Sbjct: 15  GVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQERFRALAPMY 74
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT  ++F   K WV+EL++ G P++++ +  NK DL + R+V   + +
Sbjct: 75  YRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAK 134
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            YA      F+ETSAK+A N+NELF EI++R+
Sbjct: 135 DYADSIHAIFVETSAKNAININELFIEISRRI 166

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score =  140 bits (353), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 66/153 (43%), Positives = 96/153 (62%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GKTSLVLR+ + +F D   +T+GA+F T+ L++    +   IWDTAGQER+H+L P+YY
Sbjct: 17  VGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYY 76
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
           R        YDIT  DSF++ K WV+EL++     + + +V NK+DLE++R V  +E E 
Sbjct: 77  RDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAES 136
Query: 123 YAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
           YA+  G     TSAK    + ELF ++ KR+ E
Sbjct: 137 YAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 169

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score =  139 bits (350), Expect = 9e-34,   Method: Compositional matrix adjust.
 Identities = 66/154 (42%), Positives = 97/154 (62%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+L+F   +F    + TIG  F  ++++++   IK  IWDTAGQE + S+   Y
Sbjct: 20  GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSY 79
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT  D+F     W+++ ++  N N+++ L+ NK DLE +R+VK EEGE
Sbjct: 80  YRGAAGALLVYDITRRDTFNHLTTWLEDARQHSNSNMVIMLIGNKSDLESRREVKKEEGE 139
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
            +A+E+GL F+ETSAK+A NV E F   AK + E
Sbjct: 140 AFAREHGLIFMETSAKTASNVEEAFINTAKEIYE 173

>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 =  138 bits (348), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 67/152 (44%), Positives = 96/152 (63%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+S++ RFV+  F      TIGA+F T+ +       KF IWDTAG ER+ +LAPMY
Sbjct: 16  GVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMY 75
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT  ++F   K WV+EL++ G P++++ +  NK DL + R+V   + +
Sbjct: 76  YRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAK 135
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            YA      F+ETSAK+A N+NELF EI++R+
Sbjct: 136 DYADSIHAIFVETSAKNAININELFIEISRRI 167

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score =  137 bits (345), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 65/153 (42%), Positives = 95/153 (62%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GKTSLVLR+ + +F D   +T+ A+F T+ L++    +   IWDTAGQER+H+L P+YY
Sbjct: 31  VGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYY 90
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
           R        YDIT  DSF++ K WV+EL++     + + +V NK+DLE++R V  +E E 
Sbjct: 91  RDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAES 150
Query: 123 YAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
           YA+  G     TSAK    + ELF ++ KR+ E
Sbjct: 151 YAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 183

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score =  137 bits (344), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 69/156 (44%), Positives = 94/156 (60%), Gaps = 4/156 (2%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + D   STIG  F  + +SL   T+K  IWDTAGQER+ ++   Y
Sbjct: 19  GVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQIWDTAGQERFRTITSSY 78
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T  DSF+  K+W+QE+ R    N+   LV NK DL  KR V ++EG 
Sbjct: 79  YRGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVGNKCDLVSKRVVTSDEGR 138
Query: 122 LYAQENGLSFLETSAKSAHNVNELFY----EIAKRL 153
             A  +G+ F+ETSAK+A+NV + F+    EI KR+
Sbjct: 139 ELADSHGIKFIETSAKNAYNVEQAFHTMAGEIKKRV 174

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score =  137 bits (344), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 65/153 (42%), Positives = 95/153 (62%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GKTSLVLR+ + +F D   +T+ A+F T+ L++    +   IWDTAGQER+H+L P+YY
Sbjct: 17  VGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYY 76
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
           R        YDIT  DSF++ K WV+EL++     + + +V NK+DLE++R V  +E E 
Sbjct: 77  RDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAES 136
Query: 123 YAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
           YA+  G     TSAK    + ELF ++ KR+ E
Sbjct: 137 YAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 169

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score =  137 bits (344), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 63/152 (41%), Positives = 99/152 (65%)
Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKTSL+ RF+   F +  ++TIG  F ++ + L + T++  +WDTAGQER+ SL P Y R
Sbjct: 14  GKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIR 73
Query: 64  GXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                   YDIT+++SF++  KW+ +++ +   ++I+ LV NK DL +KR++  EEGE  
Sbjct: 74  DSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGNKTDLADKRQITIEEGEQR 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
           A+E  + F+ETSAK+ +NV +LF  +A  L E
Sbjct: 134 AKELSVMFIETSAKTGYNVKQLFRRVASALLE 165

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score =  136 bits (342), Expect = 8e-33,   Method: Compositional matrix adjust.
 Identities = 64/151 (42%), Positives = 98/151 (64%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GKTSL+ RF+   F +  ++TIG  F ++ + L + TI+  +WDTAGQER+ SL P Y 
Sbjct: 17  VGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYI 76
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
           R        YDIT+++SF++  KW+ +++ +   ++I+ LV NK DL +KR+V  EEGE 
Sbjct: 77  RDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGER 136
Query: 123 YAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            A+E  + F+ETSAK+ +NV +LF  +A  L
Sbjct: 137 KAKELNVMFIETSAKAGYNVKQLFRRVAAAL 167

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score =  135 bits (340), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 63/150 (42%), Positives = 96/150 (64%)
Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKTSL+ RF+   F +  ++TIG  F ++ + L + T++  +WDTAGQER+ SL P Y R
Sbjct: 26  GKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIR 85
Query: 64  GXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                   YDIT+ +SF +  KW+ +++ +   ++I+ LV NK DL +KR+V  EEGE  
Sbjct: 86  DSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERK 145
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+E  + F+ETSAK+ +NV +LF  +A  L
Sbjct: 146 AKELNVMFIETSAKAGYNVKQLFRRVAAAL 175

>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 =  135 bits (340), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 63/152 (41%), Positives = 98/152 (64%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKTSL+ RF+   F +  ++TIG  F ++ + L + T++  +WDTAGQER+ SL P Y
Sbjct: 11  SVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSY 70
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
            R        YDIT+++SF++  KW+ +++ +   ++I+ LV NK DL +KR+V  EEGE
Sbjct: 71  IRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGE 130
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             A+E  + F+ETSAK+ +NV +LF  +A  L
Sbjct: 131 RKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 162

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score =  133 bits (334), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 63/151 (41%), Positives = 97/151 (64%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GKTSL+ RF+   F +  ++TIG  F ++ + L + TI+  +WDTAG ER+ SL P Y 
Sbjct: 24  VGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYI 83
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
           R        YDIT+++SF++  KW+ +++ +   ++I+ LV NK DL +KR+V  EEGE 
Sbjct: 84  RDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGER 143
Query: 123 YAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            A+E  + F+ETSAK+ +NV +LF  +A  L
Sbjct: 144 KAKELNVMFIETSAKAGYNVKQLFRRVAAAL 174

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score =  132 bits (333), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 63/152 (41%), Positives = 95/152 (62%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+L+F   +F    + TIG  F  ++++++   IK  IWDTAGQE + S+   Y
Sbjct: 31  GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSY 90
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT  ++F     W+++ ++  + N+++ L+ NK DLE +R VK EEGE
Sbjct: 91  YRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGE 150
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +A+E+GL F+ETSAK+A NV E F   AK +
Sbjct: 151 AFAREHGLIFMETSAKTACNVEEAFINTAKEI 182

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score =  132 bits (332), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 62/152 (40%), Positives = 97/152 (63%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKTSL+ RF+   F +  ++TIG  F ++ + L + T++  +WDTAG ER+ SL P Y
Sbjct: 16  SVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLERFRSLIPSY 75
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
            R        YDIT+++SF++  KW+ +++ +   ++I+ LV NK DL +KR+V  EEGE
Sbjct: 76  IRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGE 135
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             A+E  + F+ETSAK+ +NV +LF  +A  L
Sbjct: 136 RKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 167

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score =  132 bits (332), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 62/151 (41%), Positives = 97/151 (64%)
Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKTSL+ RF+   F +  ++TIG  F ++ + L + T++  +WDTAG ER+ SL P Y R
Sbjct: 28  GKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLERFRSLIPSYIR 87
Query: 64  GXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                   YDIT+++SF++  KW+ +++ +   ++I+ LV NK DL +KR+V  EEGE  
Sbjct: 88  DSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERK 147
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRLA 154
           A+E  + F+ETSAK+ +NV +LF  +A  L 
Sbjct: 148 AKELNVMFIETSAKAGYNVKQLFRRVAAALP 178

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score =  129 bits (324), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 62/153 (40%), Positives = 91/153 (59%)
Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           MG GK+ L+ +F + +F      TIG  F T+++ ++   IK  IWDTAGQER+ ++   
Sbjct: 24  MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRS 83
Query: 61  YYRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRG       YDIT   ++     W+ + +   NPN ++ L+ NK DLE +R V  EE 
Sbjct: 84  YYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEA 143
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           + +A+ENGL FLE SAK+  NV + F E AK++
Sbjct: 144 KQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 176

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score =  129 bits (324), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 66/152 (43%), Positives = 90/152 (59%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKTS++ RF    F +  +STIG  F ++ L L+E  ++  +WDTAGQER+ SL P Y
Sbjct: 11  AVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSY 70
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
            R        YDIT+  SFE   KW+Q++  +   ++I+ LV NK DL + RKV  EEG 
Sbjct: 71  IRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGX 130
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             AQE    F ETSAK+ HN+  LF + A +L
Sbjct: 131 QKAQEYNTXFHETSAKAGHNIKVLFKKTASKL 162

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score =  128 bits (322), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 64/163 (39%), Positives = 98/163 (60%), Gaps = 2/163 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT LV RF +G F   Q +TIG  F  + + +N   +K  IWDTAGQER+ S+   Y
Sbjct: 36  GVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSY 95
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YR        YDIT  +SF    +W++E+++  +  +I  LV NK+DL E+R+V  +  E
Sbjct: 96  YRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAE 155
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGM 164
            +++   + +LETSAK + NV +LF ++A RL  ++ +RQ  +
Sbjct: 156 EFSEAQDMYYLETSAKESDNVEKLFLDLACRL--ISEARQNTL 196

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score =  128 bits (321), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 66/172 (38%), Positives = 98/172 (56%), Gaps = 1/172 (0%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L+ RF + +F    +STIG  F T+ + ++  TIK  IWDTAGQERY  +   Y
Sbjct: 15  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAY 74
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDI    ++E  ++W++EL+   + N+++ LV NK DL   R V  +E  
Sbjct: 75  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEAR 134
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMK-LHTESHG 172
            +A++N LSF+ETSA  + NV E F  I   +  +   +Q   +  H ES G
Sbjct: 135 AFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIADRAAHDESPG 186

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score =  126 bits (317), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 61/153 (39%), Positives = 90/153 (58%)
Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           MG GK+ L+ +F + +F      TIG  F T+++ ++   IK  IWDTAGQ R+ ++   
Sbjct: 39  MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQGRFRAVTRS 98
Query: 61  YYRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRG       YDIT   ++     W+ + +   NPN ++ L+ NK DLE +R V  EE 
Sbjct: 99  YYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEA 158
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           + +A+ENGL FLE SAK+  NV + F E AK++
Sbjct: 159 KQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 191

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score =  125 bits (315), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 61/148 (41%), Positives = 90/148 (60%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L+ RF + +F    +STIG  F T+ + ++  TIK  IWDTAGQERY ++   Y
Sbjct: 39  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRAITSAY 98
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDI    ++E  ++W++EL+   + N+++ LV NK DL   R V  +E  
Sbjct: 99  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEAR 158
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEI 149
            +A++NGLSF+ETSA  + NV   F  I
Sbjct: 159 AFAEKNGLSFIETSALDSTNVEAAFQTI 186

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score =  125 bits (315), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 61/148 (41%), Positives = 90/148 (60%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L+ RF + +F    +STIG  F T+ + ++  TIK  IWDTAGQERY ++   Y
Sbjct: 30  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRAITSAY 89
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDI    ++E  ++W++EL+   + N+++ LV NK DL   R V  +E  
Sbjct: 90  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEAR 149
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEI 149
            +A++NGLSF+ETSA  + NV   F  I
Sbjct: 150 AFAEKNGLSFIETSALDSTNVEAAFQTI 177

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score =  125 bits (313), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 70/189 (37%), Positives = 101/189 (53%), Gaps = 40/189 (21%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSL------------------------- 36
             GK+S+VLR  K  F +   +TIGA+F T V++L                         
Sbjct: 17  SVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNN 76
Query: 37  ------------NEVTIKFDIWDTAGQERYHSLAPMYYRGXXXXXXXYDITSMDSFERAK 84
                       N   IKFDIWDTAGQERY S+ P+YYRG       +DI++ ++ +RAK
Sbjct: 77  VIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAK 136
Query: 85  KWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNE 144
            WV +L+     N I+ LVANK+D + K +V   E + YAQ+N L F++TSAK+  N+  
Sbjct: 137 TWVNQLKISS--NYIIILVANKID-KNKFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKN 193
Query: 145 LFYEIAKRL 153
           +FY +A+ +
Sbjct: 194 IFYMLAEEI 202

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score =  125 bits (313), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 64/161 (39%), Positives = 96/161 (59%), Gaps = 1/161 (0%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSL-NEVTIKFDIWDTAGQERYHSLAPM 60
           G GK++L+ RF + +F    +STIG  F T+ + L N   IK  IWDTAGQERY ++   
Sbjct: 17  GVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWDTAGQERYRAITSA 76
Query: 61  YYRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRG       YDIT  +SFE  +KW++EL+   + N+++ LV NK DL+  R + + + 
Sbjct: 77  YYRGAVGALLVYDITKKNSFENIEKWLKELRDNADSNIVILLVGNKSDLKHLRVINDNDA 136
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
             YA++  L+F+ETSA  A NV   F+++   +  V   +Q
Sbjct: 137 TQYAKKEKLAFIETSALEATNVELAFHQLLNEIYNVRQKKQ 177

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score =  124 bits (312), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 69/176 (39%), Positives = 95/176 (53%), Gaps = 2/176 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L+ RF K +F    +STIG  F T+ L +    IK  IWDTAGQERY ++   Y
Sbjct: 23  GVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAY 82
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDI+   S+E    W+ EL+   + N+ + L+ NK DL   R V  EE +
Sbjct: 83  YRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESK 142
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGRRG 177
            +AQEN L F ETSA ++ NV++ F E+   + +     Q  M L   S  G   G
Sbjct: 143 TFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSKHQ--MDLGDSSANGNANG 196

>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 =  124 bits (311), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 65/156 (41%), Positives = 90/156 (57%), Gaps = 4/156 (2%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  TIK  IWDTAGQER+ ++   Y
Sbjct: 19  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 78
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T  +S+   K+W+QE+ R  + N+   LV NK DL  K+ V N   +
Sbjct: 79  YRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTTKKVVDNTTAK 138
Query: 122 LYAQENGLSFLETSAKSAHNVNELFY----EIAKRL 153
            +A   G+ FLETSAK+A NV + F     EI KR+
Sbjct: 139 EFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRM 174

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score =  123 bits (309), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 63/165 (38%), Positives = 97/165 (58%), Gaps = 6/165 (3%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGK+ L+ +F++ +F      TIG  F ++V+++   T+K  IWDTAGQER+ S+   Y
Sbjct: 35  GTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSY 94
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDITS +++     W+ + +   +PN+++ L  NK DL+ +R+V   E  
Sbjct: 95  YRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEAS 154
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL------AEVNPSR 160
            +AQEN L FLETSA +  NV E F + A+ +       E++P R
Sbjct: 155 RFAQENELMFLETSALTGENVEEAFLKCARTILNKIDSGELDPER 199

>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 =  123 bits (309), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 65/156 (41%), Positives = 90/156 (57%), Gaps = 4/156 (2%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  TIK  IWDTAGQER+ ++   Y
Sbjct: 19  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 78
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T  +S+   K+W+QE+ R  + N+   LV NK DL  K+ V N   +
Sbjct: 79  YRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTTKKVVDNTTAK 138
Query: 122 LYAQENGLSFLETSAKSAHNVNELFY----EIAKRL 153
            +A   G+ FLETSAK+A NV + F     EI KR+
Sbjct: 139 EFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRM 174

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score =  123 bits (308), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 60/154 (38%), Positives = 90/154 (58%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  T+K  IWDTAGQER+ ++   Y
Sbjct: 18  GVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSY 77
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T  +SF   K W+QE+ R     ++  LV NK DL++KR V+ +  +
Sbjct: 78  YRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAK 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
            +A  N + FLETSA  + NV + F  +A+++ E
Sbjct: 138 EFADANKMPFLETSALDSTNVEDAFLTMARQIKE 171

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score =  123 bits (308), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 60/148 (40%), Positives = 89/148 (60%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L+ RF + +F    +STIG  F T+ + ++  TIK  IWDTAG ERY ++   Y
Sbjct: 39  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAY 98
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDI    ++E  ++W++EL+   + N+++ LV NK DL   R V  +E  
Sbjct: 99  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEAR 158
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEI 149
            +A++NGLSF+ETSA  + NV   F  I
Sbjct: 159 AFAEKNGLSFIETSALDSTNVEAAFQTI 186

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score =  122 bits (307), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 60/154 (38%), Positives = 90/154 (58%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  T+K  IWDTAGQER+ ++   Y
Sbjct: 18  GVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSY 77
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T  +SF   K W+QE+ R     ++  LV NK DL++KR V+ +  +
Sbjct: 78  YRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAK 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
            +A  N + FLETSA  + NV + F  +A+++ E
Sbjct: 138 EFADANKMPFLETSALDSTNVEDAFLTMARQIKE 171

>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 =  122 bits (307), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 65/157 (41%), Positives = 89/157 (56%), Gaps = 4/157 (2%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  TIK  IWDTAGQER+ ++   Y
Sbjct: 26  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 85
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T  +SF   K+W+QE+ R  + N+   LV NK DL  K+ V     +
Sbjct: 86  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 145
Query: 122 LYAQENGLSFLETSAKSAHNVNELFY----EIAKRLA 154
            +A   G+ FLETSAK+A NV + F     EI KR+ 
Sbjct: 146 EFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMG 182

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score =  122 bits (307), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 65/156 (41%), Positives = 89/156 (57%), Gaps = 4/156 (2%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  TIK  IWDTAGQER+ ++   Y
Sbjct: 9   GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 68
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T  +SF   K+W+QE+ R  + N+   LV NK DL  K+ V     +
Sbjct: 69  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 128
Query: 122 LYAQENGLSFLETSAKSAHNVNELFY----EIAKRL 153
            +A   G+ FLETSAK+A NV + F     EI KR+
Sbjct: 129 EFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 164

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score =  122 bits (307), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 60/148 (40%), Positives = 89/148 (60%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L+ RF + +F    +STIG  F T+ + ++  TIK  IWDTAG ERY ++   Y
Sbjct: 18  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAY 77
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDI    ++E  ++W++EL+   + N+++ LV NK DL   R V  +E  
Sbjct: 78  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEAR 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEI 149
            +A++NGLSF+ETSA  + NV   F  I
Sbjct: 138 AFAEKNGLSFIETSALDSTNVEAAFQTI 165

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score =  122 bits (306), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 65/157 (41%), Positives = 89/157 (56%), Gaps = 4/157 (2%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  TIK  IWDTAGQER+ ++   Y
Sbjct: 35  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 94
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T  +SF   K+W+QE+ R  + N+   LV NK DL  K+ V     +
Sbjct: 95  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 154
Query: 122 LYAQENGLSFLETSAKSAHNVNELFY----EIAKRLA 154
            +A   G+ FLETSAK+A NV + F     EI KR+ 
Sbjct: 155 EFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMG 191

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score =  122 bits (306), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 65/156 (41%), Positives = 89/156 (57%), Gaps = 4/156 (2%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  TIK  IWDTAGQER+ ++   Y
Sbjct: 16  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 75
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T  +SF   K+W+QE+ R  + N+   LV NK DL  K+ V     +
Sbjct: 76  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 135
Query: 122 LYAQENGLSFLETSAKSAHNVNELFY----EIAKRL 153
            +A   G+ FLETSAK+A NV + F     EI KR+
Sbjct: 136 EFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 171

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score =  122 bits (306), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 60/154 (38%), Positives = 90/154 (58%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  T+K  IWDTAGQER+ ++   Y
Sbjct: 31  GVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSY 90
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T  +SF   K W+QE+ R     ++  LV NK DL++KR V+ +  +
Sbjct: 91  YRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAK 150
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
            +A  N + FLETSA  + NV + F  +A+++ E
Sbjct: 151 EFADANKMPFLETSALDSTNVEDAFLTMARQIKE 184

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score =  122 bits (305), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 65/156 (41%), Positives = 89/156 (57%), Gaps = 4/156 (2%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  TIK  IWDTAGQER+ ++   Y
Sbjct: 16  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 75
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T  +SF   K+W+QE+ R  + N+   LV NK DL  K+ V     +
Sbjct: 76  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 135
Query: 122 LYAQENGLSFLETSAKSAHNVNELFY----EIAKRL 153
            +A   G+ FLETSAK+A NV + F     EI KR+
Sbjct: 136 EFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 171

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score =  122 bits (305), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 60/148 (40%), Positives = 89/148 (60%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L+ RF + +F    +STIG  F T+ + ++  TIK  IWDTAG ERY ++   Y
Sbjct: 15  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAY 74
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDI    ++E  ++W++EL+   + N+++ LV NK DL   R V  +E  
Sbjct: 75  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLRHLRAVPTDEAR 134
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEI 149
            +A++NGLSF+ETSA  + NV   F  I
Sbjct: 135 AFAEKNGLSFIETSALDSTNVEAAFQTI 162

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score =  122 bits (305), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 60/148 (40%), Positives = 89/148 (60%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L+ RF + +F    +STIG  F T+ + ++  TIK  IWDTAG ERY ++   Y
Sbjct: 21  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAY 80
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDI    ++E  ++W++EL+   + N+++ LV NK DL   R V  +E  
Sbjct: 81  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLRHLRAVPTDEAR 140
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEI 149
            +A++NGLSF+ETSA  + NV   F  I
Sbjct: 141 AFAEKNGLSFIETSALDSTNVEAAFQTI 168

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  122 bits (305), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 64/153 (41%), Positives = 90/153 (58%), Gaps = 1/153 (0%)
Query: 2   GTGKTSLVLRFVKGQFFDFQ-ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           G GKT L++RF  G F      ST+G  F  +VL ++ V +K  +WDTAGQER+ S+   
Sbjct: 20  GVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHA 79
Query: 61  YYRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYR        YD+T+  SF+  + W+ E+      ++ + L+ NKVD   +R VK E+G
Sbjct: 80  YYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDG 139
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           E  A+E GL F+ETSAK+  NV+  F  IAK L
Sbjct: 140 EKLAKEYGLPFMETSAKTGLNVDLAFTAIAKEL 172

>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 =  121 bits (304), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 65/156 (41%), Positives = 88/156 (56%), Gaps = 4/156 (2%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK  L+LRF    + +   STIG  F  + + L+  TIK  IWDTAGQER+ ++   Y
Sbjct: 26  GVGKNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 85
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T  +SF   K+W+QE+ R  + N+   LV NK DL  K+ V     +
Sbjct: 86  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 145
Query: 122 LYAQENGLSFLETSAKSAHNVNELFY----EIAKRL 153
            +A   G+ FLETSAK+A NV + F     EI KR+
Sbjct: 146 EFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 181

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score =  120 bits (302), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 65/155 (41%), Positives = 88/155 (56%), Gaps = 4/155 (2%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  TIK  IWDTAGQER+ ++   Y
Sbjct: 43  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 102
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T  +SF   K+W+QE+ R  + N+   LV NK DL  K+ V     +
Sbjct: 103 YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 162
Query: 122 LYAQENGLSFLETSAKSAHNVNELFY----EIAKR 152
            +A   G+ FLETSAK+A NV + F     EI KR
Sbjct: 163 EFADSLGIPFLETSAKNATNVEQSFXTXAAEIKKR 197

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score =  120 bits (302), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 61/165 (36%), Positives = 96/165 (58%), Gaps = 6/165 (3%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGK+ L+ +F++ +F D    TIG  F ++++++    +K  IWDTAGQER+ S+   Y
Sbjct: 20  GTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSY 79
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDITS +++     W+ + +   + N+++ L  NK DL+  R+V   E  
Sbjct: 80  YRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEAS 139
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL------AEVNPSR 160
            +AQEN L FLETSA +  NV E F + A+++       E++P R
Sbjct: 140 RFAQENELMFLETSALTGENVEEAFVQCARKILNKIESGELDPER 184

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score =  119 bits (299), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 61/154 (39%), Positives = 91/154 (59%), Gaps = 1/154 (0%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L++RFV+ +F     +TIG  F  + + +N   +K  IWDTAGQER+ ++   Y
Sbjct: 13  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAY 72
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT   +F   K+W + +    N    + LV NK D+ E R V  ++GE
Sbjct: 73  YRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGE 131
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
             A+E G+ F+E+SAK+  NVNE+F+ +AK + E
Sbjct: 132 ALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQE 165

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score =  119 bits (297), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 57/152 (37%), Positives = 86/152 (56%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT+L+ RF + +F     +TIG  F T+ + L    +K  IWDTAG ERY ++   Y
Sbjct: 35  GVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAY 94
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       +D+T   ++   ++W++EL       +++ LV NK DL + R+V  EE  
Sbjct: 95  YRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEAR 154
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           ++A+ NGL FLETSA  + NV   F  + K +
Sbjct: 155 MFAENNGLLFLETSALDSTNVELAFETVLKEI 186

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score =  119 bits (297), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 57/152 (37%), Positives = 86/152 (56%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT+L+ RF + +F     +TIG  F T+ + L    +K  IWDTAG ERY ++   Y
Sbjct: 20  GVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAY 79
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       +D+T   ++   ++W++EL       +++ LV NK DL + R+V  EE  
Sbjct: 80  YRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEAR 139
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           ++A+ NGL FLETSA  + NV   F  + K +
Sbjct: 140 MFAENNGLLFLETSALDSTNVELAFETVLKEI 171

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score =  119 bits (297), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 64/156 (41%), Positives = 88/156 (56%), Gaps = 4/156 (2%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  TIK  IWDTAGQER+ ++   Y
Sbjct: 18  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 77
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T  +SF   K+W+QE+ R  + N+   LV  K DL  K+ V     +
Sbjct: 78  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGIKCDLTTKKVVDYTTAK 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFY----EIAKRL 153
            +A   G+ FLETSAK+A NV + F     EI KR+
Sbjct: 138 EFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 173

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score =  118 bits (296), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 60/164 (36%), Positives = 97/164 (59%), Gaps = 2/164 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L++RFV+ +F     +TIG  F  + + +N   +K  +WDTAGQER+ ++   Y
Sbjct: 30  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAY 89
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T   +F   K+W + +    N    + LV NK D+ E R V  ++GE
Sbjct: 90  YRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGE 148
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE-VNPSRQTGM 164
             A+E G+ F+E+SAK+  NVNE+F+ +AK + E ++ ++  G+
Sbjct: 149 ALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSNKLVGV 192

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score =  118 bits (296), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 62/154 (40%), Positives = 91/154 (59%), Gaps = 1/154 (0%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L++RFV+ +F     +TIG  F  + + +N   +K  IWDTAGQER+ ++   Y
Sbjct: 13  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAY 72
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT   +F   K+W + +    N    + LV NK D  E R V  ++GE
Sbjct: 73  YRGAXGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD-XETRVVTADQGE 131
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
             A+E G+ F+E+SAK+  NVNE+F+ +AK + E
Sbjct: 132 ALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQE 165

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score =  118 bits (295), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 59/154 (38%), Positives = 91/154 (59%), Gaps = 1/154 (0%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L++RFV+ +F     +TIG  F  + + +N   +K  +WDTAGQER+ ++   Y
Sbjct: 17  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAY 76
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T   +F   K+W + +    N    + LV NK D+ E R V  ++GE
Sbjct: 77  YRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGE 135
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
             A+E G+ F+E+SAK+  NVNE+F+ +AK + E
Sbjct: 136 ALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQE 169

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score =  117 bits (292), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 57/152 (37%), Positives = 91/152 (59%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGK+ L+ +F++ +F D    TIG  F ++++++    +K  IWDTAGQER+ S+   Y
Sbjct: 21  GTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSY 80
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDITS +++     W+ + +   + N+++ L  NK DL+  R+V   E  
Sbjct: 81  YRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEAS 140
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +AQEN L FLETSA +  +V E F + A+++
Sbjct: 141 RFAQENELMFLETSALTGEDVEEAFVQCARKI 172

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score =  116 bits (291), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 60/154 (38%), Positives = 91/154 (59%), Gaps = 1/154 (0%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L++RFV+ +F     +TIG  F  + + +N   +K  +WDTAGQER+ ++   Y
Sbjct: 13  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAY 72
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+T   +F   K+W + +    N    + LV NK D  E R V  ++GE
Sbjct: 73  YRGAXGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSD-XETRVVTADQGE 131
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
             A+E G+ F+E+SAK+  NVNE+F+ +AK + E
Sbjct: 132 ALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQE 165

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  115 bits (288), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 56/152 (36%), Positives = 88/152 (57%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT ++ RF +  F     STIG  F  + + L+   IK  IWDTAGQER+ ++   Y
Sbjct: 16  GVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAY 75
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT+  SF+  + W++ ++   + ++   ++ NK D+ +KR+V  E GE
Sbjct: 76  YRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGE 135
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             A + G+ F+ETSAK+  NV   F+ +A+ +
Sbjct: 136 KLALDYGIKFMETSAKANINVENAFFTLARDI 167

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  115 bits (288), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 56/152 (36%), Positives = 88/152 (57%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT ++ RF +  F     STIG  F  + + L+   IK  IWDTAGQER+ ++   Y
Sbjct: 18  GVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAY 77
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT+  SF+  + W++ ++   + ++   ++ NK D+ +KR+V  E GE
Sbjct: 78  YRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGE 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             A + G+ F+ETSAK+  NV   F+ +A+ +
Sbjct: 138 KLALDYGIKFMETSAKANINVENAFFTLARDI 169

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score =  114 bits (286), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 56/150 (37%), Positives = 88/150 (58%), Gaps = 1/150 (0%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKTSL+ RF    F +  +ST+G  F  + + L    I+  IWDTAGQER++S+   Y
Sbjct: 36  GVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAY 95
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YR        YDIT  ++F+   KW++ + +  + +  + LV NK+D E  R++  ++GE
Sbjct: 96  YRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGE 155
Query: 122 LYAQE-NGLSFLETSAKSAHNVNELFYEIA 150
            +AQ+  G+ F E SAK   NV+E+F ++ 
Sbjct: 156 KFAQQITGMRFCEASAKDNFNVDEIFLKLV 185

>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 =  114 bits (285), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 56/152 (36%), Positives = 90/152 (59%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGK+ L+ +F++ +F D    TIG  F ++++++    +K  IWDTAG ER+ S+   Y
Sbjct: 18  GTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGLERFRSVTRSY 77
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDITS +++     W+ + +   + N+++ L  NK DL+  R+V   E  
Sbjct: 78  YRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEAS 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +AQEN L FLETSA +  +V E F + A+++
Sbjct: 138 RFAQENELMFLETSALTGEDVEEAFVQCARKI 169

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score =  112 bits (279), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 57/148 (38%), Positives = 84/148 (56%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L+ RF   +F    +STIG  F T+ + +    IK  IWDTAG ERY ++   Y
Sbjct: 20  GVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKKIKAQIWDTAGLERYRAITSAY 79
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDI+   S+E    W+ EL+   + N+ + L+ NK DL   R V  +E +
Sbjct: 80  YRGAVGALIVYDISKSSSYENCNHWLTELRENADDNVAVGLIGNKSDLAHLRAVPTDEAK 139
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEI 149
            +A EN + F ETSA ++ NV++ F E+
Sbjct: 140 NFAMENQMLFTETSALNSDNVDKAFREL 167

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score =  110 bits (275), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 61/163 (37%), Positives = 90/163 (55%), Gaps = 4/163 (2%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL+LRF    F     +TIG  F  + + +N   +K  IWDTAGQER+ ++   Y
Sbjct: 19  GVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTY 78
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YD+TS +SF   K+W+ E+  Q   ++   LV NK D  E++ V+ E+  
Sbjct: 79  YRGTHGVIVVYDVTSAESFVNVKRWLHEIN-QNCDDVCRILVGNKNDDPERKVVETEDAY 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELF---YEIAKRLAEVNPSRQ 161
            +A + G+   ETSAK   NV E+F    E+  R  + N ++Q
Sbjct: 138 KFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKDNLAKQ 180

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score =  110 bits (274), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 58/152 (38%), Positives = 82/152 (53%), Gaps = 1/152 (0%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GKT +V RF  G F + Q STIG  F  + L +    +K  IWDTAGQER+ ++   YY
Sbjct: 40  VGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYY 99
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
           R        YDIT   SF     W++++++    N++  L+ NK DL E R+V   E + 
Sbjct: 100 RSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQS 159
Query: 123 YAQE-NGLSFLETSAKSAHNVNELFYEIAKRL 153
            A+  + L  +ETSAK + NV E F  +A  L
Sbjct: 160 LAEHYDILCAIETSAKDSSNVEEAFLRVATEL 191

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score =  108 bits (269), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 58/155 (37%), Positives = 88/155 (56%), Gaps = 2/155 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL+LRF    F     +TIG  F  + +S++    K  IWDTAGQER+ +L P Y
Sbjct: 25  GVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSY 84
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPN-LIMFLVANKVDLEEKRKVKNEEG 120
           YRG       YD+T  D+F +   W+ EL+     N ++  LV NK+D +E R+V   EG
Sbjct: 85  YRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNXLVGNKID-KENREVDRNEG 143
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
             +A+++   F+E SAK+   V   F E+ +++ +
Sbjct: 144 LKFARKHSXLFIEASAKTCDGVQCAFEELVEKIIQ 178

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score =  106 bits (264), Expect = 9e-24,   Method: Compositional matrix adjust.
 Identities = 55/153 (35%), Positives = 82/153 (53%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GKTS + R+    F     ST+G  F  + +  +E  +K  IWDTAGQERY ++   YY
Sbjct: 34  VGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYY 93
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
           RG       YDIT+ +SF   + W  +++     N  + LV NK D+EE+R V  E+G+L
Sbjct: 94  RGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQL 153
Query: 123 YAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
            A++ G  F E SAK   +V + F  +   + +
Sbjct: 154 LAEQLGFDFFEASAKENISVRQAFERLVDAICD 186

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score =  105 bits (261), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 56/154 (36%), Positives = 78/154 (50%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKTS + R+    F     ST+G  F  + +  N+  IK  IWDTAGQERY ++   Y
Sbjct: 15  SVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAY 74
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       YDIT+ +SF   + W  +++     N  + LV NK D+E++R V +E G 
Sbjct: 75  YRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGR 134
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
             A   G  F E SAK   NV + F  +   + E
Sbjct: 135 QLADHLGFEFFEASAKDNINVKQTFERLVDVICE 168

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score =  104 bits (259), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 55/153 (35%), Positives = 79/153 (51%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GKTS + R+    F     ST+G  F  + +  ++  IK  IWDTAGQERY ++   YY
Sbjct: 33  VGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYY 92
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
           RG       YDI + +SF   + W  +++     N  + LV NK DLE++R V  E+G  
Sbjct: 93  RGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRR 152
Query: 123 YAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
            A + G  F E SAK   NV ++F  +   + E
Sbjct: 153 LADDLGFEFFEASAKENINVKQVFERLVDVICE 185

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score =  102 bits (253), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 55/155 (35%), Positives = 89/155 (57%), Gaps = 6/155 (3%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKTSL+ ++V  +F +  ++TIGA F T+ + +++  +   IWDTAGQER+ SL   +
Sbjct: 18  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAF 77
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRKVKN 117
           YRG       +D+T+ ++F+    W  E   Q +P    N    ++ NK+DL E R+V  
Sbjct: 78  YRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDL-ENRQVAT 136
Query: 118 EEGELYA-QENGLSFLETSAKSAHNVNELFYEIAK 151
           +  + +   +N + + ETSAK A NV + F  IA+
Sbjct: 137 KRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIAR 171

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score =  101 bits (252), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 55/155 (35%), Positives = 89/155 (57%), Gaps = 6/155 (3%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKTSL+ ++V  +F +  ++TIGA F T+ + +++  +   IWDTAGQER+ SL   +
Sbjct: 18  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAF 77
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRKVKN 117
           YRG       +D+T+ ++F+    W  E   Q +P    N    ++ NK+DL E R+V  
Sbjct: 78  YRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDL-ENRQVAT 136
Query: 118 EEGELYA-QENGLSFLETSAKSAHNVNELFYEIAK 151
           +  + +   +N + + ETSAK A NV + F  IA+
Sbjct: 137 KRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIAR 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 =  100 bits (250), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 57/152 (37%), Positives = 78/152 (51%)
Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKTS + R+    F     ST+G  F  + +  N+  IK  IWDTAG ERY ++   YYR
Sbjct: 20  GKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYR 79
Query: 64  GXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
           G       YDIT+ +SF   + W  +++     N  + LV NK D E++R V +E G   
Sbjct: 80  GAXGFILXYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDXEDERVVSSERGRQL 139
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
           A   G  F E SAK   NV + F  +   + E
Sbjct: 140 ADHLGFEFFEASAKDNINVKQTFERLVDVICE 171

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score =  100 bits (249), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 63/168 (37%), Positives = 88/168 (52%), Gaps = 17/168 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFD------IWDTAGQERYH 55
           G GKTSL+ R+V  ++    ++TIGA F T+     EVT+  D      +WDTAGQER+ 
Sbjct: 18  GVGKTSLMHRYVNDKYSQQYKATIGADFLTK-----EVTVDGDKVATMQVWDTAGQERFQ 72
Query: 56  SLAPMYYRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPN----LIMFLVANKVDLEE 111
           SL   +YRG       YD+T+  SFE  K W  E     N N        ++ NK+D EE
Sbjct: 73  SLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEE 132
Query: 112 KRKVKNEEG--ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN 157
            +K+ +E+   EL      +    TSAK+A NV+  F EIA+   + N
Sbjct: 133 SKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQN 180

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score =  100 bits (249), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 54/155 (34%), Positives = 88/155 (56%), Gaps = 6/155 (3%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKTSL+ ++V  +F +  ++TIGA F T+ + +++  +   IWDTAGQER+ SL   +
Sbjct: 18  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAF 77
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRKVKN 117
           YRG       +D+T+ ++F+    W  E   Q +P    N    ++ NK+D  E R+V  
Sbjct: 78  YRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDF-ENRQVAT 136
Query: 118 EEGELYA-QENGLSFLETSAKSAHNVNELFYEIAK 151
           +  + +   +N + + ETSAK A NV + F  IA+
Sbjct: 137 KRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIAR 171

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 99.4 bits (246), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 54/155 (34%), Positives = 88/155 (56%), Gaps = 6/155 (3%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKTSL+ ++V  +F +  ++TIGA F T+ + +++  +   IWDTAG ER+ SL   +
Sbjct: 18  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGLERFQSLGVAF 77
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRKVKN 117
           YRG       +D+T+ ++F+    W  E   Q +P    N    ++ NK+DL E R+V  
Sbjct: 78  YRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDL-ENRQVAT 136
Query: 118 EEGELYA-QENGLSFLETSAKSAHNVNELFYEIAK 151
           +  + +   +N + + ETSAK A NV + F  IA+
Sbjct: 137 KRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIAR 171

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 96.7 bits (239), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 46/108 (42%), Positives = 63/108 (58%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  TIK  IWDTAGQER+ ++   Y
Sbjct: 8   GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 67
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL 109
           YRG       YD+T  +SF   K+W+QE+ R  + N+   LV NK DL
Sbjct: 68  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 115

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 96.3 bits (238), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 55/156 (35%), Positives = 82/156 (52%), Gaps = 5/156 (3%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH-SLAPMY 61
            GKT L  RF  G+F D  E+TIG  F  + + ++   IK  +WDTAGQER+  S+   Y
Sbjct: 31  VGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHY 90
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRKVKNEEG 120
           YR        YD+T+M SF     W++E ++    N I   LV NK DL    +V  +  
Sbjct: 91  YRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLA 150
Query: 121 ELYAQENGLSFLETSAKSAHN---VNELFYEIAKRL 153
           + +A  + +   ETSAK+ ++   V  +F  +A +L
Sbjct: 151 QKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKL 186

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 92.8 bits (229), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 50/151 (33%), Positives = 82/151 (54%), Gaps = 1/151 (0%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+S++ R+ KG F    + TIG  F  + + +N+  ++  +WDTAGQE + ++   Y
Sbjct: 15  AVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAY 74
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG       +  T  +SFE    W +++  +   ++   LV NK+DL +   +KNEE E
Sbjct: 75  YRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLLDDSCIKNEEAE 133
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKR 152
             A+   L F  TS K   NV+E+F  +A++
Sbjct: 134 GLAKRLKLRFYRTSVKEDLNVSEVFKYLAEK 164

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score = 92.0 bits (227), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 54/156 (34%), Positives = 79/156 (50%), Gaps = 5/156 (3%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH-SLAPMY 61
            GKT L  RF  G+F D  E+TIG  F  + + ++   IK  +WDTAGQER+  S+   Y
Sbjct: 40  VGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHY 99
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRKVKNEEG 120
           YR        YD T+  SF     W++E ++    N I   LV NK DL    +V  +  
Sbjct: 100 YRNVHAVVFVYDXTNXASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLA 159
Query: 121 ELYAQENGLSFLETSAKSAHN---VNELFYEIAKRL 153
           + +A  +     ETSAK+ ++   V  +F  +A +L
Sbjct: 160 QKFADTHSXPLFETSAKNPNDNDHVEAIFXTLAHKL 195

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 90.9 bits (224), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 52/155 (33%), Positives = 92/155 (59%), Gaps = 3/155 (1%)
Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           +G GK++L ++FV+G F +  + TI  ++  QV  ++      +I DTAG E++ ++  +
Sbjct: 14  VGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQV-EVDAQQCMLEILDTAGTEQFTAMRDL 72
Query: 61  YYRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEE 119
           Y +        Y IT+  +F   +   +++ R +   ++ M LV NK DLE++R V  E+
Sbjct: 73  YMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLEDERVVGKEQ 132
Query: 120 GE-LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           G+ L  Q N  +FLE+SAKS  NVNE+FY++ +++
Sbjct: 133 GQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQI 167

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 90.5 bits (223), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 52/154 (33%), Positives = 91/154 (59%), Gaps = 3/154 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++FV+G F +  + TI  ++  QV  ++      +I DTAG E++ ++  +Y
Sbjct: 13  GVGKSALTVQFVQGIFVEKYDPTIEDSYRKQV-EVDAQQCMLEILDTAGTEQFTAMRDLY 71
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            +        Y IT+  +F   +   +++ R +   ++ M LV NK DLE++R V  E+G
Sbjct: 72  MKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLEDERVVGKEQG 131
Query: 121 E-LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           + L  Q N  +FLE+SAKS  NVNE+FY++ +++
Sbjct: 132 QNLARQWNNCAFLESSAKSKINVNEIFYDLVRQI 165

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score = 89.7 bits (221), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 57/182 (31%), Positives = 104/182 (57%), Gaps = 4/182 (2%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L L+F+  +F +  E T   ++  +V+ L+   ++ DI DTAGQE Y ++   Y
Sbjct: 24  GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQEDYAAIRDNY 82
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           +R        + IT M+SF     + +++ R + + N+   LV NK DLE+KR+V  EE 
Sbjct: 83  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA 142
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAK--RLAEVNPSRQTGMKLHTESHGGGRRGF 178
           +  A++  ++++ETSAK+  NV+++F+++ +  R  ++  S++   K   +S     R  
Sbjct: 143 KNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMEDSKEKNGKKKRKSLAKRIRER 202
Query: 179 CC 180
           CC
Sbjct: 203 CC 204

>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 = 1e-18,   Method: Compositional matrix adjust.
 Identities = 50/153 (32%), Positives = 93/153 (60%), Gaps = 2/153 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L L+F+  +F +  E T   ++  +V+ L+   ++ DI DTAGQE Y ++   Y
Sbjct: 28  GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQEDYAAIRDNY 86
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           +R        + IT M+SF     + +++ R + + N+   LV NK DLE+KR+V  EE 
Sbjct: 87  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA 146
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +  A++  ++++ETSAK+  NV+++F+++ + +
Sbjct: 147 KNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 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 = 1e-18,   Method: Compositional matrix adjust.
 Identities = 50/153 (32%), Positives = 93/153 (60%), Gaps = 2/153 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L L+F+  +F +  E T   ++  +V+ L+   ++ DI DTAGQE Y ++   Y
Sbjct: 16  GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQEDYAAIRDNY 74
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           +R        + IT M+SF     + +++ R + + N+   LV NK DLE+KR+V  EE 
Sbjct: 75  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA 134
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +  A++  ++++ETSAK+  NV+++F+++ + +
Sbjct: 135 KNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 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 = 89.0 bits (219), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 52/154 (33%), Positives = 90/154 (58%), Gaps = 3/154 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++FV+G F D  + TI  ++  QV  ++      +I DTAG E++ ++  +Y
Sbjct: 13  GVGKSALTVQFVQGIFVDEYDPTIEDSYRKQV-EVDCQQCMLEILDTAGTEQFTAMRDLY 71
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            +        Y IT+  +F   +   +++ R +   ++ M LV NK DLE++R V  E+G
Sbjct: 72  MKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQG 131
Query: 121 E-LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           + L  Q    +FLE+SAKS  NVNE+FY++ +++
Sbjct: 132 QNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>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 = 88.2 bits (217), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 50/153 (32%), Positives = 92/153 (60%), Gaps = 2/153 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L L+F+  +F +  E T   ++  +V+ L+   ++ DI DTAGQE Y ++   Y
Sbjct: 14  GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQEDYAAIRDNY 72
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           +R        + IT M+SF     + +++ R + + N+   LV NK DLE+KR+V  EE 
Sbjct: 73  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA 132
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +  A +  ++++ETSAK+  NV+++F+++ + +
Sbjct: 133 KNRADQWNVNYVETSAKTRANVDKVFFDLMREI 165

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 88.2 bits (217), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 58/160 (36%), Positives = 81/160 (50%), Gaps = 6/160 (3%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL+ R+V  +F      TIG  F  + L ++   +   IWDTAGQER+ SL   +
Sbjct: 17  GVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVDGRFVTLQIWDTAGQERFKSLRTPF 76
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQG---NPNLIMFLV-ANKVDLEEKRKVKN 117
           YRG       + +    SFE    W +E        +P    F+V  NKVD +E R+V  
Sbjct: 77  YRGADCCLLTFSVDDRQSFENLGNWQKEFIYYADVKDPEHFPFVVLGNKVD-KEDRQVTT 135
Query: 118 EEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEV 156
           EE + +  ENG   +LETSAK   NV   F E  +++  V
Sbjct: 136 EEAQTWCMENGDYPYLETSAKDDTNVTVAFEEAVRQVLAV 175

>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 = 88.2 bits (217), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 54/157 (34%), Positives = 81/157 (51%), Gaps = 6/157 (3%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL+ R+V  +F      TIG  F  + L ++   +   IWDTAGQER+ SL   +
Sbjct: 19  GVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPF 78
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGN---PNLIMFLV-ANKVDLEEKRKVKN 117
           YRG       + +    SF+    W +E     +   P    F++  NK+D+ E R+V  
Sbjct: 79  YRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVST 137
Query: 118 EEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRL 153
           EE + + ++NG   + ETSAK A NV   F E  +R+
Sbjct: 138 EEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 174

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 87.8 bits (216), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 54/157 (34%), Positives = 81/157 (51%), Gaps = 6/157 (3%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL+ R+V  +F      TIG  F  + L ++   +   IWDTAGQER+ SL   +
Sbjct: 17  GVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPF 76
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGN---PNLIMFLV-ANKVDLEEKRKVKN 117
           YRG       + +    SF+    W +E     +   P    F++  NK+D+ E R+V  
Sbjct: 77  YRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVST 135
Query: 118 EEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRL 153
           EE + + ++NG   + ETSAK A NV   F E  +R+
Sbjct: 136 EEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 172

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 87.4 bits (215), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 84/152 (55%), Gaps = 3/152 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +T+G      V   N   IKF++WDTAGQE+Y  L   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKYGGLRDGY 79
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD+++ RKVK +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD-RKVKAKSIV 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            + ++N L + + SAKS +N  + F  +A++L
Sbjct: 138 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 87.4 bits (215), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 49/158 (31%), Positives = 78/158 (49%), Gaps = 6/158 (3%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+S ++R  K +F +   +T+G  F  + L ++       +WDTAGQER+ S+A  Y
Sbjct: 38  AVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSY 97
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL------EEKRKV 115
           +R        YD+T   SF   ++WV  ++   +  + + LV NK D+      E ++ V
Sbjct: 98  FRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCV 157
Query: 116 KNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
               GE  A   G  F ETSAK   N+ E    +A+ +
Sbjct: 158 PGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREV 195

>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 = 87.0 bits (214), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 51/154 (33%), Positives = 90/154 (58%), Gaps = 3/154 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++FV+G F +  + TI  ++  QV  ++      +I DTAG E++ ++  +Y
Sbjct: 13  GVGKSALTVQFVQGIFVEKYDPTIEDSYRKQV-EVDCQQCMLEILDTAGTEQFTAMRDLY 71
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            +        Y IT+  +F   +   +++ R +   ++ M LV NK DLE++R V  E+G
Sbjct: 72  MKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQG 131
Query: 121 E-LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           + L  Q    +FLE+SAKS  NVNE+FY++ +++
Sbjct: 132 QNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 86.7 bits (213), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 53/157 (33%), Positives = 81/157 (51%), Gaps = 6/157 (3%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL+ R+V  +F      TIG  F  + L ++   +   IWDTAGQER+ SL   +
Sbjct: 21  GVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPF 80
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGN---PNLIMFLV-ANKVDLEEKRKVKN 117
           YRG       + +    SF+    W +E     +   P    F++  NK D++E R+V  
Sbjct: 81  YRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKTDIKE-RQVST 139
Query: 118 EEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRL 153
           EE + + ++NG   + ETSAK + NV   F E  +R+
Sbjct: 140 EEAQAWCKDNGDYPYFETSAKDSTNVAAAFEEAVRRI 176

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 86.7 bits (213), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 84/152 (55%), Gaps = 3/152 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +T+G      V   N   IKF++WDTAGQE++  L   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 79
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD+++ RKVK +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD-RKVKAKSIV 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            + ++N L + + SAKS +N  + F  +A++L
Sbjct: 138 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 86.3 bits (212), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 84/152 (55%), Gaps = 3/152 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +T+G      V   N   IKF++WDTAGQE++  L   Y
Sbjct: 25  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 84
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD+++ RKVK +   
Sbjct: 85  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD-RKVKAKSIV 142
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            + ++N L + + SAKS +N  + F  +A++L
Sbjct: 143 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKL 173

>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 = 86.3 bits (212), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 84/152 (55%), Gaps = 3/152 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +T+G      V   N   IKF++WDTAGQE++  L   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 79
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD+++ RKVK +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD-RKVKAKSIV 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            + ++N L + + SAKS +N  + F  +A++L
Sbjct: 138 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 85.9 bits (211), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 84/152 (55%), Gaps = 3/152 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +T+G      V   N   IKF++WDTAGQE++  L   Y
Sbjct: 13  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 72
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD+++ RKVK +   
Sbjct: 73  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD-RKVKAKSIV 130
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            + ++N L + + SAKS +N  + F  +A++L
Sbjct: 131 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKL 161

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 85.9 bits (211), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 83/152 (54%), Gaps = 3/152 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F      T+G      V   N   IKF++WDTAGQE++  L   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 79
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD+++ RKVK +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD-RKVKAKSIV 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            + ++N L + + SAKS +N  + F  +A++L
Sbjct: 138 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 85.9 bits (211), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 84/152 (55%), Gaps = 3/152 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +T+G      V   N   IKF++WDTAGQE++  L   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 79
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD+++ RKVK +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD-RKVKAKSIV 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            + ++N L + + SAKS +N  + F  +A++L
Sbjct: 138 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 85.9 bits (211), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 84/152 (55%), Gaps = 3/152 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +T+G      V   N   IKF++WDTAGQE++  L   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLEDGY 79
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD+++ RKVK +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD-RKVKAKSIV 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            + ++N L + + SAKS +N  + F  +A++L
Sbjct: 138 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKL 168

>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 = 49/153 (32%), Positives = 92/153 (60%), Gaps = 2/153 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L L+F+  +F +  E T   ++  +V+ L+   ++ DI DTAG E Y ++   Y
Sbjct: 16  GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGLEDYAAIRDNY 74
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           +R        + IT M+SF     + +++ R + + N+   LV NK DLE+KR+V  EE 
Sbjct: 75  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA 134
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +  A++  ++++ETSAK+  NV+++F+++ + +
Sbjct: 135 KNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 167

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 85.9 bits (211), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 85/152 (55%), Gaps = 3/152 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +T+G      V   N   IKF++WDTAGQE++  L   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 79
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD+++ RKVK +   
Sbjct: 80  YIQAQCAIIXFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD-RKVKAKSIV 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            + ++N L + + SAKS +N  + F  +A++L
Sbjct: 138 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 85.5 bits (210), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 83/152 (54%), Gaps = 3/152 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F      T+G      V   N   IKF++WDTAGQE++  L   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 79
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD+++ RKVK +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD-RKVKAKSIV 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            + ++N L + + SAKS +N  + F  +A++L
Sbjct: 138 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKL 168

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 85.1 bits (209), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 56/157 (35%), Positives = 85/157 (54%), Gaps = 4/157 (2%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +TIG          N   IKFD+WDTAG E++  L   Y
Sbjct: 15  GTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLEKFGGLRDGY 74
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD++E RKVK +   
Sbjct: 75  YINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKE-RKVKAKTIT 132
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP 158
            + ++N L + + SAKS +N  + F  +A++LA  NP
Sbjct: 133 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKLAG-NP 167

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 85.1 bits (209), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 54/153 (35%), Positives = 83/153 (54%), Gaps = 3/153 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +TIG          N   IKFD+WDTAG E++  L   Y
Sbjct: 14  GTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLEKFGGLRDGY 73
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD++E RKVK +   
Sbjct: 74  YINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKE-RKVKAKTIT 131
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLA 154
            + ++N L + + SAKS +N  + F  +A++LA
Sbjct: 132 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKLA 163

>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 = 84.7 bits (208), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 54/153 (35%), Positives = 83/153 (54%), Gaps = 3/153 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +TIG          N   IKFD+WDTAG E++  L   Y
Sbjct: 22  GTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLEKFGGLRDGY 81
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD++E RKVK +   
Sbjct: 82  YINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKE-RKVKAKTIT 139
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLA 154
            + ++N L + + SAKS +N  + F  +A++LA
Sbjct: 140 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKLA 171

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 84.0 bits (206), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 83/152 (54%), Gaps = 3/152 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +T+G      V   N   IKF++WDTAG E++  L   Y
Sbjct: 22  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLEKFGGLRDGY 81
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD+++ RKVK +   
Sbjct: 82  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD-RKVKAKSIV 139
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            + ++N L + + SAKS +N  + F  +A++L
Sbjct: 140 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKL 170

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 84.0 bits (206), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 83/152 (54%), Gaps = 3/152 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +T+G      V   N   IKF++WDTAG E++  L   Y
Sbjct: 16  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLEKFGGLRDGY 75
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD+++ RKVK +   
Sbjct: 76  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD-RKVKAKSIV 133
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            + ++N L + + SAKS +N  + F  +A++L
Sbjct: 134 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKL 164

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 83.2 bits (204), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 83/152 (54%), Gaps = 3/152 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +T+G      V   N   IKF++WDTAG E++  L   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLEKFGGLRDGY 79
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD+++ RKVK +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD-RKVKAKSIV 137
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            + ++N L + + SAKS +N  + F  +A++L
Sbjct: 138 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKL 168

>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 = 82.8 bits (203), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 48/153 (31%), Positives = 83/153 (54%), Gaps = 3/153 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y
Sbjct: 14  GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQY 72
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R        + I +  SFE    + ++++R + + ++ M LV NK DL   R V  ++ 
Sbjct: 73  MRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDL-PSRTVDTKQA 131
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +  A+  G+ F+ETSAK+   V++ FY + + +
Sbjct: 132 QDLARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 82.8 bits (203), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 83/152 (54%), Gaps = 3/152 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+      +T+G      V   N   IKF++WDTAGQE++  L   Y
Sbjct: 25  GTGKTTFVKRHLTGESEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 84
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y         +D+TS  +++    W ++L R    N+ + L  NKVD+++ RKVK +   
Sbjct: 85  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKD-RKVKAKSIV 142
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            + ++N L + + SAKS +N  + F  +A++L
Sbjct: 143 FHRKKN-LQYYDISAKSNYNFEKPFLWLARKL 173

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 82.8 bits (203), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 48/154 (31%), Positives = 89/154 (57%), Gaps = 3/154 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L L+F+  +F +  E T   ++  +V+ L+   ++ DI DTAG E Y ++   Y
Sbjct: 17  GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGLEDYAAIRDNY 75
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR--QGNPNLIMFLVANKVDLEEKRKVKNEE 119
           +R        + IT  +SF    ++ +++ R       + + +V NK DLEE+R+V  EE
Sbjct: 76  FRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLEERRQVPVEE 135
Query: 120 GELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
               A+E G+ ++ETSAK+  NV+++F+++ + +
Sbjct: 136 ARSKAEEWGVQYVETSAKTRANVDKVFFDLMREI 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 = 82.8 bits (203), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 48/154 (31%), Positives = 89/154 (57%), Gaps = 3/154 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L L+F+  +F +  E T   ++  +V+ L+   ++ DI DTAG E Y ++   Y
Sbjct: 13  GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGLEDYAAIRDNY 71
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR--QGNPNLIMFLVANKVDLEEKRKVKNEE 119
           +R        + IT  +SF    ++ +++ R       + + +V NK DLEE+R+V  EE
Sbjct: 72  FRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLEERRQVPVEE 131
Query: 120 GELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
               A+E G+ ++ETSAK+  NV+++F+++ + +
Sbjct: 132 ARSKAEEWGVQYVETSAKTRANVDKVFFDLMREI 165

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 82.0 bits (201), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 50/171 (29%), Positives = 83/171 (48%), Gaps = 19/171 (11%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNE----------VTIKFDIWDTAGQ 51
           G GKT+ + R+   +F     +T+G  F  + +  N             +   +WDTAGQ
Sbjct: 35  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ 94
Query: 52  ERYHSLAPMYYRGXXXXXXXYDITSMDSFERAKKWVQELQRQG---NPNLIMFLVANKVD 108
           ER+ SL   ++R        +D+TS  SF   + W+ +LQ      NP+++  L+ NK D
Sbjct: 95  ERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV--LIGNKAD 152
Query: 109 LEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNE----LFYEIAKRLAE 155
           L ++R+V   +    A + G+ + ETSA +  NV +    L   I KR+ +
Sbjct: 153 LPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQ 203

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 81.6 bits (200), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 48/153 (31%), Positives = 83/153 (54%), Gaps = 3/153 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y
Sbjct: 14  GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQY 72
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R        + I +  SFE    + ++++R + + ++ M LV NK DL   R V  ++ 
Sbjct: 73  MRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDL-PSRTVDTKQA 131
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +  A+  G+ F+ETSAK+   V++ FY + + +
Sbjct: 132 QDLARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 81.3 bits (199), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 54/169 (31%), Positives = 85/169 (50%), Gaps = 19/169 (11%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQ--VLSLNEVT--------IKFDIWDTAGQ 51
           G GKTS++ ++  G+F     +T+G  F  +  V   N           I   +WDTAG 
Sbjct: 21  GVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGL 80
Query: 52  ERYHSLAPMYYRGXXXXXXXYDITSMDSFERAKKWVQELQRQG---NPNLIMFLVANKVD 108
           ER+ SL   ++R        +D+T+  SF   + W+ +LQ      NP+++  L  NK D
Sbjct: 81  ERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIV--LCGNKSD 138
Query: 109 LEEKRKVKNEEGELYAQENGLSFLETSAKS----AHNVNELFYEIAKRL 153
           LE++R VK EE    A++ G+ + ETSA +    +H +  L   I KR+
Sbjct: 139 LEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRM 187

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 81.3 bits (199), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 47/153 (30%), Positives = 84/153 (54%), Gaps = 3/153 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y
Sbjct: 13  GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQY 71
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R        + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + 
Sbjct: 72  MRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQA 130
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +  A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 131 QDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 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 = 81.3 bits (199), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 47/153 (30%), Positives = 84/153 (54%), Gaps = 3/153 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y
Sbjct: 13  GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQY 71
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R        + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + 
Sbjct: 72  MRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQA 130
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +  A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 131 QDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 81.3 bits (199), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 47/153 (30%), Positives = 84/153 (54%), Gaps = 3/153 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y
Sbjct: 13  GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQY 71
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R        + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + 
Sbjct: 72  MRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQA 130
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +  A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 131 QDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 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 = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 49/165 (29%), Positives = 90/165 (54%), Gaps = 8/165 (4%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAK-----RLAEVNPSRQTG 163
           A+  G+ ++ETSAK+   V + FY + +     +L ++NP  ++G
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREIRQHKLRKLNPPDESG 178

>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 = 80.9 bits (198), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 47/153 (30%), Positives = 84/153 (54%), Gaps = 3/153 (1%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y
Sbjct: 13  GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQY 71
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R        + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + 
Sbjct: 72  MRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AGRTVESRQA 130
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +  A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 131 QDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 80.5 bits (197), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 79/150 (52%), Gaps = 3/150 (2%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SLVLRFVKG F +    T+   +  QV+S ++      I DT G  ++ ++  + 
Sbjct: 13  GVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAMQRLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQEL-QRQGNPNLI-MFLVANKVDLEEKRKVKNEE 119
                     Y ITS  S E  K   +++ + +G+   I + LV NK D    R+V++ E
Sbjct: 72  ISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSE 131
Query: 120 GELYAQENGLSFLETSAKSAHNVNELFYEI 149
            E  A+    +F+ETSAK  HNV ELF E+
Sbjct: 132 AEALARTWKCAFMETSAKLNHNVKELFQEL 161

>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 = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 46/151 (30%), Positives = 76/151 (50%), Gaps = 1/151 (0%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAA-FFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           G GKT+ + R + G+F     +T+GA       L      IKF++WDTAGQE+   L  +
Sbjct: 21  GVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDV 80
Query: 61  YYRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YY G       +D+TS  + +   +WV+E Q        + + ANK+D++ ++K+  +  
Sbjct: 81  YYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLV 140
Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
               +     + E SAK+AHN    F  +A+
Sbjct: 141 MEVLKGKNYEYFEISAKTAHNFGLPFLHLAR 171

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 78.2 bits (191), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 49/169 (28%), Positives = 82/169 (48%), Gaps = 19/169 (11%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVL----------SLNEVTIKFDIWDTAGQ 51
           G GKT+ + R+   +F     +T+G  F  + +          S     +   +WDTAG 
Sbjct: 21  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHLQLWDTAGL 80
Query: 52  ERYHSLAPMYYRGXXXXXXXYDITSMDSFERAKKWVQELQRQG---NPNLIMFLVANKVD 108
           ER+ SL   ++R        +D+TS  SF   + W+ +LQ      NP+++  L+ NK D
Sbjct: 81  ERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV--LIGNKAD 138
Query: 109 LEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNE----LFYEIAKRL 153
           L ++R+V   +    A++ G+ + ETSA +  NV +    L   I KR+
Sbjct: 139 LPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIMKRM 187

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 78.2 bits (191), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 49/169 (28%), Positives = 82/169 (48%), Gaps = 19/169 (11%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVL----------SLNEVTIKFDIWDTAGQ 51
           G GKT+ + R+   +F     +T+G  F  + +          S     +   +WDTAG 
Sbjct: 21  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHLQLWDTAGL 80
Query: 52  ERYHSLAPMYYRGXXXXXXXYDITSMDSFERAKKWVQELQRQG---NPNLIMFLVANKVD 108
           ER+ SL   ++R        +D+TS  SF   + W+ +LQ      NP+++  L+ NK D
Sbjct: 81  ERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV--LIGNKAD 138
Query: 109 LEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNE----LFYEIAKRL 153
           L ++R+V   +    A++ G+ + ETSA +  NV +    L   I KR+
Sbjct: 139 LPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIMKRM 187

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 50/162 (30%), Positives = 79/162 (48%), Gaps = 4/162 (2%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSL-NEVTIKFDIWDTAGQERYHSLAPMY 61
           +GKTSL   F +  F    + TIG  FF + ++L   + +   IWD  GQ     +   Y
Sbjct: 17  SGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKY 76
Query: 62  YRGXXXXXXXYDITSMDSFERAKKW---VQELQRQGNPNLIMFLVANKVDLEEKRKVKNE 118
             G       YDIT+  SFE  + W   V+++  +     ++ LV NK+DLE  R +K E
Sbjct: 77  IYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPE 136
Query: 119 EGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSR 160
           +   + QENG S    SAK+  +V   F ++A  +  +  ++
Sbjct: 137 KHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIKLNK 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 = 77.8 bits (190), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 43/148 (29%), Positives = 83/148 (56%), Gaps = 2/148 (1%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++F++  F    + TI  ++  Q + +++   + DI DTAGQE + ++   Y R 
Sbjct: 18  KSALTIQFIQSYFVTDYDPTIEDSYTKQCV-IDDRAARLDILDTAGQEEFGAMREQYMRT 76
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + +T   SFE   K+ +++ R +      M L+ NK DL+ +R+V  EEG+  
Sbjct: 77  GEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQL 136
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAK 151
           A++  ++++E SAK   NV++ F+E+ +
Sbjct: 137 ARQLKVTYMEASAKIRMNVDQAFHELVR 164

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 77.0 bits (188), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 83/150 (55%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E+ +  DI DTAGQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGEICL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 77.0 bits (188), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 23  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 81
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 82  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 140
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 141 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 170

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 76.6 bits (187), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 47/154 (30%), Positives = 77/154 (50%), Gaps = 15/154 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVL----------SLNEVTIKFDIWDTAGQ 51
           G GKT+ + R+   +F     +T+G  F  + +          S     +   +WDTAG 
Sbjct: 21  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHLQLWDTAGL 80
Query: 52  ERYHSLAPMYYRGXXXXXXXYDITSMDSFERAKKWVQELQRQG---NPNLIMFLVANKVD 108
           ER+ SL   ++R        +D+TS  SF   + W  +LQ      NP+++  L+ NK D
Sbjct: 81  ERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDIV--LIGNKAD 138
Query: 109 LEEKRKVKNEEGELYAQENGLSFLETSAKSAHNV 142
           L ++R+V   +    A++ G+ + ETSA +  NV
Sbjct: 139 LPDQREVNERQARELAEKYGIPYFETSAATGQNV 172

>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 = 76.6 bits (187), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 47/154 (30%), Positives = 77/154 (50%), Gaps = 15/154 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVL----------SLNEVTIKFDIWDTAGQ 51
           G GKT+ + R+   +F     +T+G  F  + +          S     +   +WDTAG 
Sbjct: 21  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHLQLWDTAGL 80
Query: 52  ERYHSLAPMYYRGXXXXXXXYDITSMDSFERAKKWVQELQRQG---NPNLIMFLVANKVD 108
           ER+ SL   ++R        +D+TS  SF   + W  +LQ      NP+++  L+ NK D
Sbjct: 81  ERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDIV--LIGNKAD 138
Query: 109 LEEKRKVKNEEGELYAQENGLSFLETSAKSAHNV 142
           L ++R+V   +    A++ G+ + ETSA +  NV
Sbjct: 139 LPDQREVNERQARELAEKYGIPYFETSAATGQNV 172

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 76.6 bits (187), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 84/158 (53%), Gaps = 2/158 (1%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GKTSL  +FV+G+F +  + T+   + +++++L +      + DTAGQ+ Y  L   + 
Sbjct: 35  VGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILPYSFI 93
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
            G       Y +TS+ SF+  +   Q+L    G   + + LV NK DL  +R+V+  EG+
Sbjct: 94  IGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGK 153
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
             A+  G +F+E+SA+       +F ++ + +A V  S
Sbjct: 154 KLAESWGATFMESSARENQLTQGIFTKVIQEIARVENS 191

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 76.3 bits (186), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 79
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 138
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 139 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 168

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 76.3 bits (186), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 79
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 138
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 139 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 168

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 76.3 bits (186), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 46/150 (30%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 75
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE    + ++++R + + ++ M LV NK DL   R V  ++ +  
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDL-PSRTVDTKQAQDL 134
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ F+ETSAK+   V++ FY + + +
Sbjct: 135 ARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 76.3 bits (186), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 46/150 (30%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 75
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE    + ++++R + + ++ M LV NK DL   R V  ++ +  
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDL-PSRTVDTKQAQDL 134
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ F+ETSAK+   V++ FY + + +
Sbjct: 135 ARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 53/156 (33%), Positives = 82/156 (52%), Gaps = 8/156 (5%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++LV+RF+  +F    + T+ + +  Q  ++++  +  +I DTAGQE        +
Sbjct: 38  GVGKSALVVRFLTKRFIWEYDPTLESTYRHQA-TIDDEVVSMEILDTAGQEDTIQREG-H 95
Query: 62  YRGXXXXXXXYDITSMDSFERA---KKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNE 118
            R        YDIT   SFE     K  + E+++  N  LI  LV NK DL+  R+V  E
Sbjct: 96  MRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLI--LVGNKADLDHSRQVSTE 153
Query: 119 EGELYAQENGLSFLETSAKSAH-NVNELFYEIAKRL 153
           EGE  A E   +F E SA +   N+ E+FYE+ + +
Sbjct: 154 EGEKLATELACAFYECSACTGEGNITEIFYELCREV 189

>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 = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEESYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDKYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 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 = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 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 = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/168 (32%), Positives = 80/168 (47%), Gaps = 17/168 (10%)
Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           +  GKT L++ F K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+
Sbjct: 15  VACGKTCLLIVFSKDQFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRLRPL 73
Query: 61  YYRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLE--------- 110
            Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL          
Sbjct: 74  SYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTRREL 132
Query: 111 ---EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
              ++  VK EEG   A   G   ++E SAK+   V E+F E+A R A
Sbjct: 133 AKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAA 179

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAG E Y ++   Y R 
Sbjct: 34  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGHEEYSAMRDQYMRT 92
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE    + ++++R + + ++ M LV NK DL   R V  ++ +  
Sbjct: 93  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP-SRTVDTKQAQDL 151
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ F+ETSAK+   V++ FY + + +
Sbjct: 152 ARSYGIPFIETSAKTRQGVDDAFYTLVREI 181

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/167 (32%), Positives = 79/167 (47%), Gaps = 17/167 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ F K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 15  ACGKTCLLIVFSKDQFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRLRPLS 73
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLE---------- 110
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL           
Sbjct: 74  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTRRELA 132
Query: 111 --EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
             ++  VK EEG   A   G   ++E SAK+   V E+F E+A R A
Sbjct: 133 KMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAA 178

>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 = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/167 (32%), Positives = 79/167 (47%), Gaps = 17/167 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ F K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 17  ACGKTCLLIVFSKDQFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRLRPLS 75
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLE---------- 110
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL           
Sbjct: 76  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTRRELA 134
Query: 111 --EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
             ++  VK EEG   A   G   ++E SAK+   V E+F E+A R A
Sbjct: 135 KMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAA 180

>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 = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/167 (32%), Positives = 79/167 (47%), Gaps = 17/167 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ F K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 17  ACGKTCLLIVFSKDQFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRLRPLS 75
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLE---------- 110
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL           
Sbjct: 76  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTRRELA 134
Query: 111 --EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
             ++  VK EEG   A   G   ++E SAK+   V E+F E+A R A
Sbjct: 135 KMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAA 180

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/167 (32%), Positives = 79/167 (47%), Gaps = 17/167 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ F K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 19  ACGKTCLLIVFSKDQFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRLRPLS 77
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLE---------- 110
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL           
Sbjct: 78  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTRRELA 136
Query: 111 --EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
             ++  VK EEG   A   G   ++E SAK+   V E+F E+A R A
Sbjct: 137 KMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAA 182

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K +L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 16  KNALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/167 (32%), Positives = 79/167 (47%), Gaps = 17/167 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ F K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 16  ACGKTCLLIVFSKDQFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRLRPLS 74
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLE---------- 110
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL           
Sbjct: 75  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTRRELA 133
Query: 111 --EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
             ++  VK EEG   A   G   ++E SAK+   V E+F E+A R A
Sbjct: 134 KMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAA 179

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/167 (32%), Positives = 79/167 (47%), Gaps = 17/167 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ F K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 18  ACGKTCLLIVFSKDQFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRLRPLS 76
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLE---------- 110
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL           
Sbjct: 77  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTRRELA 135
Query: 111 --EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
             ++  VK EEG   A   G   ++E SAK+   V E+F E+A R A
Sbjct: 136 KMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAA 181

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDEYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDECDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 54/167 (32%), Positives = 79/167 (47%), Gaps = 17/167 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ F K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 17  ACGKTCLLIVFSKDQFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRLRPLS 75
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLE---------- 110
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL           
Sbjct: 76  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTRRELA 134
Query: 111 --EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
             ++  VK EEG   A   G   ++E SAK+   V E+F E+A R A
Sbjct: 135 KMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAA 180

>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 = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 81/148 (54%), Gaps = 3/148 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAK 151
           A+  G+ ++ETSAK+   V + FY + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + +I  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 22  KSALTIQLIQNHFVDEYDPSIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 80
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 81  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 139
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 140 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 169

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEFDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>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 = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV N+ DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNRCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 52/165 (31%), Positives = 79/165 (47%), Gaps = 17/165 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ F K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 35  ACGKTCLLIVFSKDQFPEVYVPTVFENYIADI-EVDGKQVELALWDTAGQEDYDRLRPLS 93
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL +         
Sbjct: 94  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFXPNVPIILVGNKKDLRQDEHTRRELA 152
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKR 152
              +  V++EEG   A   +   +LE SAK+   V E+F E+A R
Sbjct: 153 KMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF-EMATR 196

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 52/165 (31%), Positives = 79/165 (47%), Gaps = 17/165 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ F K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 35  ACGKTCLLIVFSKDQFPEVYVPTVFENYIADI-EVDGKQVELALWDTAGQEDYDRLRPLS 93
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL +         
Sbjct: 94  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRQDEHTRRELA 152
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKR 152
              +  V++EEG   A   +   +LE SAK+   V E+F E+A R
Sbjct: 153 KMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF-EMATR 196

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 50/148 (33%), Positives = 75/148 (50%), Gaps = 2/148 (1%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GK+SL ++FV+GQF D  + TI   F T+++++N       + DTAGQ+ Y      Y 
Sbjct: 17  VGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYS 75
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQEL-QRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
                    Y +TS+ SFE  K    +L    G   + + LV NK DL  +R +  EEG+
Sbjct: 76  IDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGK 135
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEI 149
             A+    +FLE+SAK      ++F  I
Sbjct: 136 ALAESWNAAFLESSAKENQTAVDVFRRI 163

>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 = 74.3 bits (181), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 53/188 (28%), Positives = 90/188 (47%), Gaps = 17/188 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT +++ +   +F      T+   F   V +++   +   +WDTAGQE Y  L P+ 
Sbjct: 19  AVGKTCMLICYTSNKFPTDYIPTVFDNFSANV-AVDGQIVNLGLWDTAGQEDYSRLRPLS 77
Query: 62  YRGXXXXXXXYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDLEEKRK------ 114
           YRG       + + S  S+E   KKW+ EL+R   PN+ + LV  K+DL + +       
Sbjct: 78  YRGADIFVLAFSLISKASYENVLKKWMPELRRFA-PNVPIVLVGTKLDLRDDKGYLADHT 136
Query: 115 --VKNEEG-ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESH 171
             + + +G EL  Q    +++E S+K+  NV  +F    K +  + P R+  +    ++H
Sbjct: 137 NVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVV--LQPPRRKEVPRRRKNH 194
Query: 172 GGGRRGFC 179
              RR  C
Sbjct: 195 ---RRSGC 199

>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 = 74.3 bits (181), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + +I  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPSIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 74.3 bits (181), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DT GQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTGGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 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 = 74.3 bits (181), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DT GQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTTGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 74.3 bits (181), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 50/148 (33%), Positives = 75/148 (50%), Gaps = 2/148 (1%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GK+SL ++FV+GQF D  + TI   F T+++++N       + DTAGQ+ Y      Y 
Sbjct: 15  VGKSSLTIQFVEGQFVDSADPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYS 73
Query: 63  RGXXXXXXXYDITSMDSFERAKKWV-QELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
                    Y +TS+ SFE  K    + L   G   + + LV NK DL  +R +  EEG+
Sbjct: 74  IDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGK 133
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEI 149
             A+    +FLE+SAK      ++F  I
Sbjct: 134 ALAESWNAAFLESSAKENQTAVDVFRRI 161

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 73.9 bits (180), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAG+E Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGKEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 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 = 73.9 bits (180), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAG E Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGHEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 73.9 bits (180), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 50/148 (33%), Positives = 75/148 (50%), Gaps = 2/148 (1%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GK+SL ++FV+GQF D  + TI   F T+++++N       + DTAGQ+ Y      Y 
Sbjct: 12  VGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYS 70
Query: 63  RGXXXXXXXYDITSMDSFERAKKWV-QELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
                    Y +TS+ SFE  K    + L   G   + + LV NK DL  +R +  EEG+
Sbjct: 71  IDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGK 130
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEI 149
             A+    +FLE+SAK      ++F  I
Sbjct: 131 ALAESWNAAFLESSAKENQTAVDVFRRI 158

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 73.9 bits (180), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F +  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVEKYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 73.9 bits (180), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 50/148 (33%), Positives = 75/148 (50%), Gaps = 2/148 (1%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
            GK+SL ++FV+GQF D  + TI   F T+++++N       + DTAGQ+ Y      Y 
Sbjct: 17  VGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYS 75
Query: 63  RGXXXXXXXYDITSMDSFERAKKWV-QELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
                    Y +TS+ SFE  K    + L   G   + + LV NK DL  +R +  EEG+
Sbjct: 76  IDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGK 135
Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEI 149
             A+    +FLE+SAK      ++F  I
Sbjct: 136 ALAESWNAAFLESSAKENQTAVDVFRRI 163

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 73.6 bits (179), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 47/149 (31%), Positives = 79/149 (53%), Gaps = 3/149 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++F +  F D  + TI  ++       N+  I  D+ DTAGQE + ++   Y R 
Sbjct: 31  KSALTIQFFQKIFVDDYDPTIEDSYLKHTEIDNQWAI-LDVLDTAGQEEFSAMREQYMRT 89
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  Y +T   SFE   ++ Q + R +   +  M LVANKVDL   RKV  ++G+  
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 149
Query: 124 AQENGLSFLETSAKSAH-NVNELFYEIAK 151
           A +  + ++ETSAK    NV++ F+++ +
Sbjct: 150 ATKYNIPYIETSAKDPPLNVDKTFHDLVR 178

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 73.2 bits (178), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 43/148 (29%), Positives = 78/148 (52%), Gaps = 2/148 (1%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++F++  F    + TI  ++ T++ S++ +  + DI DTAGQE + ++   Y R 
Sbjct: 22  KSALTIQFIQSYFVSDYDPTIEDSY-TKICSVDGIPARLDILDTAGQEEFGAMREQYMRA 80
Query: 65  XXXXXXXYDITSMDSF-ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I    SF E  K + Q L+ +   +  + LV NK DLE +R+V   E   +
Sbjct: 81  GHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAF 140
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAK 151
              + +++ E SAK   NV+E F ++ +
Sbjct: 141 GASHHVAYFEASAKLRLNVDEAFEQLVR 168

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 73.2 bits (178), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAG E Y ++   Y R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGLEEYSAMRDQYMRT 79
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 138
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 139 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 168

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 73.2 bits (178), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAG E Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGVEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 72.8 bits (177), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAG E Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGGEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTA QE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAAQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTA QE Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAAQEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDL-AARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 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 = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAG E Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGLEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 50/167 (29%), Positives = 76/167 (45%), Gaps = 17/167 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ F K +F +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 35  ACGKTCLLIVFSKDEFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRLRPLS 93
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           Y         + + S DS E   +KWV E+ +   PN+ + LVANK DL     V+ E  
Sbjct: 94  YPDTDVILMCFSVDSPDSLENIPEKWVPEV-KHFCPNVPIILVANKKDLRSDEHVRTELA 152
Query: 121 ELYAQE-------------NGLSFLETSAKSAHNVNELFYEIAKRLA 154
            +  +                  +LE SAK+   V E+F E A R A
Sbjct: 153 RMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVF-ETATRAA 198

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAG E Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGIEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 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 = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE   ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEASAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 43/150 (28%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E  +  DI DTAG E Y ++   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETXL-LDILDTAGGEEYSAMRDQYMRT 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SFE   ++ ++++R + + ++ M LV NK DL   R V++ + +  
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDL 133
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ ++ETSAK+   V + FY + + +
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 78/150 (52%), Gaps = 3/150 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y R 
Sbjct: 34  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQYMRT 92
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  + I +  SF     + ++++R + + ++ M LV NK DL   R V  ++    
Sbjct: 93  GEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLP-TRTVDTKQAHEL 151
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+  G+ F+ETSAK+   V + FY + + +
Sbjct: 152 AKSYGIPFIETSAKTRQGVEDAFYTLVREI 181

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 50/165 (30%), Positives = 82/165 (49%), Gaps = 15/165 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT +++ +    F      T+   F   V+ ++  T+   +WDTAGQE Y+ L P+ 
Sbjct: 16  AVGKTCMLISYTGNTFPTDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQEDYNRLRPLS 74
Query: 62  YRGXXXXXXXYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDL-EEKRKVKNEE 119
           YRG       + + S  S+E   KKW+ EL+    P + + LV  K+DL ++K+ +K+  
Sbjct: 75  YRGADVFLLAFSLISKASYENIHKKWLPELKHYA-PGIPIVLVGTKLDLRDDKQFLKDHP 133
Query: 120 G----------ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA 154
           G          EL      + +LE S+K+  NV  +F + A R+A
Sbjct: 134 GAASITTAQGEELRKMIGAVRYLECSSKTQQNVKAVF-DTAIRVA 177

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 53/167 (31%), Positives = 78/167 (46%), Gaps = 17/167 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++   K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 15  ACGKTCLLIVNSKDQFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRLRPLS 73
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLE---------- 110
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL           
Sbjct: 74  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTRRELA 132
Query: 111 --EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
             ++  VK EEG   A   G   ++E SAK+   V E+F E+A R A
Sbjct: 133 KMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAA 178

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 53/167 (31%), Positives = 78/167 (46%), Gaps = 17/167 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++   K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 15  ACGKTCLLIVNSKDQFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRLRPLS 73
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLE---------- 110
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL           
Sbjct: 74  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTRRELA 132
Query: 111 --EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
             ++  VK EEG   A   G   ++E SAK+   V E+F E+A R A
Sbjct: 133 KMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAA 178

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/157 (29%), Positives = 77/157 (49%), Gaps = 14/157 (8%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   F   V+ +N  T+   +WDTAGQE Y+ L P+ 
Sbjct: 18  AVGKTCLLISYTSNTFPTDYVPTVFDNFSANVV-VNGATVNLGLWDTAGQEDYNRLRPLS 76
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEEKRK------ 114
           YRG       + + S  S+E  +KKW+ EL+    P + + LV  K+DL + ++      
Sbjct: 77  YRGADVFILAFSLISKASYENVSKKWIPELKHYA-PGVPIVLVGTKLDLRDDKQFFIDHP 135
Query: 115 ----VKNEEGELYAQENGL-SFLETSAKSAHNVNELF 146
               +   +GE   +  G  +++E S+KS  NV  +F
Sbjct: 136 GAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVF 172

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/149 (31%), Positives = 79/149 (53%), Gaps = 3/149 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++F +  F D  + TI  ++       N+  I  D+ DTAGQE + ++   Y R 
Sbjct: 31  KSALTIQFFQKIFVDEYDPTIEDSYRKHTEIDNQWAI-LDVLDTAGQEEFSAMREQYMRT 89
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  Y +T   SFE   ++ Q + R +   +  M LVANKVDL   RKV  ++G+  
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 149
Query: 124 AQENGLSFLETSAKSAH-NVNELFYEIAK 151
           A +  + ++ETSAK    NV++ F+++ +
Sbjct: 150 ATKYNIPYIETSAKDPPLNVDKTFHDLVR 178

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 53/167 (31%), Positives = 78/167 (46%), Gaps = 17/167 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++   K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 13  ACGKTCLLIVNSKDQFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLE---------- 110
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL           
Sbjct: 72  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTRRELA 130
Query: 111 --EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
             ++  VK EEG   A   G   ++E SAK+   V E+F E+A R A
Sbjct: 131 KMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAA 176

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 53/167 (31%), Positives = 78/167 (46%), Gaps = 17/167 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++   K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 15  ACGKTCLLIVNSKDQFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRLRPLS 73
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLE---------- 110
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL           
Sbjct: 74  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTRRELA 132
Query: 111 --EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
             ++  VK EEG   A   G   ++E SAK+   V E+F E+A R A
Sbjct: 133 KMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAA 178

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 51/147 (34%), Positives = 77/147 (52%), Gaps = 4/147 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K+SLVLRFVKG F D    TI   +  QV+S ++      I DT G  ++ ++  +    
Sbjct: 21  KSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVCTLQITDTTGSHQFPAMQRLSISK 79
Query: 65  XXXXXXXYDITSMDSFERAKKWVQEL-QRQGN-PNLIMFLVANKVDLEEKRKVKNEEGEL 122
                  + +TS  S E      + + Q +G+  ++ + LV NK D E +R+V   E + 
Sbjct: 80  GHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCD-ETQREVDTREAQA 138
Query: 123 YAQENGLSFLETSAKSAHNVNELFYEI 149
            AQE   +F+ETSAK  +NV ELF E+
Sbjct: 139 VAQEWKCAFMETSAKMNYNVKELFQEL 165

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 53/167 (31%), Positives = 78/167 (46%), Gaps = 17/167 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++   K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 13  ACGKTCLLIVNSKDQFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLE---------- 110
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL           
Sbjct: 72  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTRRELA 130
Query: 111 --EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
             ++  VK EEG   A   G   ++E SAK+   V E+F E+A R A
Sbjct: 131 KMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAA 176

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 84/150 (56%), Gaps = 2/150 (1%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++FV G F +  + TI   F+ + + ++      +I DTAG E++ S+  +Y + 
Sbjct: 16  KSALTVQFVTGTFIEKYDPTI-EDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKN 74
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  Y + +  SF+  K    ++ R +    + + LV NKVDLE +R+V + EG   
Sbjct: 75  GQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRAL 134
Query: 124 AQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           A+E G  F+ETSAKS   V+ELF EI +++
Sbjct: 135 AEEWGCPFMETSAKSKTMVDELFAEIVRQM 164

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 51/165 (30%), Positives = 78/165 (47%), Gaps = 17/165 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++   K QF +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 15  ACGKTCLLIVNSKDQFPEVYVPTVFENYIADI-EVDGKQVELALWDTAGQEDYDRLRPLS 73
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL +         
Sbjct: 74  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRQDEHTRRELA 132
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKR 152
              +  V++EEG   A   +   +LE SAK+   V E+F E+A R
Sbjct: 133 KMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF-EMATR 176

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 70.5 bits (171), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 46/149 (30%), Positives = 78/149 (52%), Gaps = 3/149 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++F +  F    + TI  ++       N+  I  D+ DTAGQE + ++   Y R 
Sbjct: 31  KSALTIQFFQKIFVPEYDPTIEDSYLKHTEIDNQWAI-LDVLDTAGQEEFSAMREQYMRT 89
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  Y +T   SFE   ++ Q + R +   +  M LVANKVDL   RKV  ++G+  
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 149
Query: 124 AQENGLSFLETSAKSAH-NVNELFYEIAK 151
           A +  + ++ETSAK    NV++ F+++ +
Sbjct: 150 ATKYNIPYIETSAKDPPLNVDKTFHDLVR 178

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 70.1 bits (170), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 46/149 (30%), Positives = 78/149 (52%), Gaps = 3/149 (2%)
Query: 5   KTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG 64
           K++L ++F +  F    + TI  ++       N+  I  D+ DTAGQE + ++   Y R 
Sbjct: 26  KSALTIQFFQKIFVPDYDPTIEDSYLKHTEIDNQWAI-LDVLDTAGQEEFSAMREQYMRT 84
Query: 65  XXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY 123
                  Y +T   SFE   ++ Q + R +   +  M LVANKVDL   RKV  ++G+  
Sbjct: 85  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 144
Query: 124 AQENGLSFLETSAKSAH-NVNELFYEIAK 151
           A +  + ++ETSAK    NV++ F+++ +
Sbjct: 145 ATKYNIPYIETSAKDPPLNVDKTFHDLVR 173

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 70.1 bits (170), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 46/157 (29%), Positives = 74/157 (47%), Gaps = 14/157 (8%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT +++ +    F      T+   F   V+ ++  T+   +WDTAGQE Y+ L P+ 
Sbjct: 16  AVGKTCMLISYTSNTFPTDYVPTVFDNFSANVV-VDGNTVNLGLWDTAGQEDYNRLRPLS 74
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEEKRK------ 114
           YRG       + + S  S+E  AKKW+ EL R   P + + LV  K+DL + ++      
Sbjct: 75  YRGADVFILAFSLISKASYENVAKKWIPEL-RHYAPGVPIILVGTKLDLRDDKQFFIDHP 133
Query: 115 -----VKNEEGELYAQENGLSFLETSAKSAHNVNELF 146
                  N+  EL        ++E S+K+  NV  +F
Sbjct: 134 GAVPITTNQGEELKKLIGSPIYIECSSKTQQNVKAVF 170

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 69.7 bits (169), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 52/168 (30%), Positives = 77/168 (45%), Gaps = 17/168 (10%)
Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           +  GKT L++ F K QF      T+   +   +  ++   ++  +WDTAGQE Y    P+
Sbjct: 14  VACGKTCLLIVFSKDQFPAVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRARPL 72
Query: 61  YYRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLE--------- 110
            Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL          
Sbjct: 73  SYPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTAREL 131
Query: 111 ---EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
              ++  VK  EG   A   G   ++E SAK+   V E+F E+A R A
Sbjct: 132 AKMKQEPVKPAEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAA 178

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 52/167 (31%), Positives = 77/167 (46%), Gaps = 17/167 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++   K QF +    T+   +   +  ++   ++  +WDTAG E Y  L P+ 
Sbjct: 18  ACGKTCLLIVNSKDQFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGLEDYDRLRPLS 76
Query: 62  YRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLE---------- 110
           Y         + I S DS E   +KW  E+ +   PN+ + LV NK DL           
Sbjct: 77  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRNDEHTRRELA 135
Query: 111 --EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLA 154
             ++  VK EEG   A   G   ++E SAK+   V E+F E+A R A
Sbjct: 136 KMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF-EMATRAA 181

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 68.2 bits (165), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 53/167 (31%), Positives = 80/167 (47%), Gaps = 21/167 (12%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++   KGQF +    T+   +   V  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 20  ACGKTCLLIVNSKGQFPEVYVPTVFENYVADV-EVDGRRVELALWDTAGQEDYDRLRPLS 78
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQR--QGNPNLIMFLVANKVDL--------- 109
           Y         + I   DS E  + KW+ E+    QG P   + LV  KVDL         
Sbjct: 79  YPDSNVVLICFSIDLPDSLENVQEKWIAEVLHFCQGVP---IILVGCKVDLRNDPQTIEQ 135
Query: 110 ---EEKRKVKNEEGELYAQENGLS-FLETSAKSAHNVNELFYEIAKR 152
              E ++ V ++EG+  A + G + + E SAK+ + V E+F E A R
Sbjct: 136 LRQEGQQPVTSQEGQSVADQIGATGYYECSAKTGYGVREVF-EAATR 181

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 67.4 bits (163), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 78/164 (47%), Gaps = 16/164 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKTSL++ F  G F +    T+   +    L +    +   IWDTAGQ+ Y  L P++
Sbjct: 44  GCGKTSLLMVFADGAFPESYTPTVFERYMVN-LQVKGKPVHLHIWDTAGQDDYDRLRPLF 102
Query: 62  YRGXXXXXXXYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNE-- 118
           Y         +D+TS +SF+    +W  E+       + + +V  K DL + + + N+  
Sbjct: 103 YPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCK-KVPIIVVGCKTDLRKDKSLVNKLR 161
Query: 119 ----------EGELYAQENG-LSFLETSAKSAHNVNELFYEIAK 151
                      G+  A+  G +++LE SA+   NV+ +F E A+
Sbjct: 162 RNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAE 205

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 46/161 (28%), Positives = 76/161 (47%), Gaps = 20/161 (12%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAP 59
             GKTSLV+ +       +    I  AF  F+ V+S++   ++  + DTAGQ+ +  L P
Sbjct: 30  AVGKTSLVVSYTTN---GYPTEYIPTAFDNFSAVVSVDGRPVRLQLCDTAGQDEFDKLRP 86
Query: 60  MYYRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEE------- 111
           + Y         + + S  SF+  ++KWV E+ R   P   + LV  + DL E       
Sbjct: 87  LCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEI-RCHCPKAPIILVGTQSDLREDVKVLIE 145
Query: 112 -----KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELF 146
                ++ V  E  +L A+E    S++E SA +  N+ E+F
Sbjct: 146 LDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF 186

>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 = 47/157 (29%), Positives = 76/157 (48%), Gaps = 11/157 (7%)
Query: 4   GKTSLVLRFV-KG-QFFDFQESTIGAAFFTQVLSLNEVTIKFDIW--DTAGQERYHSLAP 59
           GK++L+  F  KG +F      T G       +++ + T+  +++  DTAG + Y     
Sbjct: 32  GKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQIS 91
Query: 60  MYYRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPN----LIMFLVANKVDLEEKR-K 114
            Y+ G       +D++SM+SFE  K W  EL +   P+    L   LVANK DL  +R +
Sbjct: 92  QYWNGVYYAILVFDVSSMESFESCKAWF-ELLKSARPDRERPLRAVLVANKTDLPPQRHQ 150
Query: 115 VKNEEGELYAQENGLSFLETSAKSA-HNVNELFYEIA 150
           V+ +  + +A  N L F + SA     + +  F  IA
Sbjct: 151 VRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIA 187

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 60.1 bits (144), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 43/174 (24%), Positives = 76/174 (43%), Gaps = 16/174 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDSKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  S+E  + KW  E+ R   P+  + LV  K+DL + +       
Sbjct: 72  YPQTDVFLICFSLVSPASYENVRAKWFPEV-RHHCPSTPIILVGTKLDLRDDKDTIEKLK 130
Query: 114 -----KVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
                 +   +G   A+E + + +LE SA +   +  +F E  + +    P+RQ
Sbjct: 131 EKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDEAIRAVLCPQPTRQ 184

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 59.3 bits (142), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 44/174 (25%), Positives = 75/174 (43%), Gaps = 16/174 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 15  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 73
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 74  YPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 132
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
                 +   +G   A+E G + +LE SA +   +  +F E  + +    P ++
Sbjct: 133 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPPVKK 186

>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 = 59.3 bits (142), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 44/174 (25%), Positives = 75/174 (43%), Gaps = 16/174 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 72  YPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 130
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
                 +   +G   A+E G + +LE SA +   +  +F E  + +    P ++
Sbjct: 131 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPPVKK 184

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 59.3 bits (142), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 44/174 (25%), Positives = 75/174 (43%), Gaps = 16/174 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 17  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 75
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 76  YPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 134
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
                 +   +G   A+E G + +LE SA +   +  +F E  + +    P ++
Sbjct: 135 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPPVKK 188

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 59.3 bits (142), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 44/174 (25%), Positives = 75/174 (43%), Gaps = 16/174 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 72  YPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 130
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
                 +   +G   A+E G + +LE SA +   +  +F E  + +    P ++
Sbjct: 131 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPPVKK 184

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 58.5 bits (140), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 44/174 (25%), Positives = 75/174 (43%), Gaps = 16/174 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 130
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
                 +   +G   A+E G + +LE SA +   +  +F E  + +    P ++
Sbjct: 131 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPPVKK 184

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 58.5 bits (140), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 44/174 (25%), Positives = 75/174 (43%), Gaps = 16/174 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 130
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
                 +   +G   A+E G + +LE SA +   +  +F E  + +    P ++
Sbjct: 131 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPPVKK 184

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 57.8 bits (138), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 47/149 (31%), Positives = 66/149 (44%), Gaps = 6/149 (4%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN---EVTIKFDIWDTAGQERYHSLA 58
           G GKTSL   F   Q  D  E  +G   + + L+++      +  D W+    ++  S  
Sbjct: 14  GVGKTSLASLFAGKQERDLHEQ-LGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQE 72
Query: 59  PMYYRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRKVKN 117
               +G       Y I    SFE A +   +L+R    + + + LV NK DL   R+V  
Sbjct: 73  SCL-QGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSV 131
Query: 118 EEGELYAQENGLSFLETSAKSAHNVNELF 146
           EEG   A      F+ETSA   HNV ELF
Sbjct: 132 EEGRACAVVFDCKFIETSATLQHNVAELF 160

>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 = 57.4 bits (137), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 43/161 (26%), Positives = 70/161 (43%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 130
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 131 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 171

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 57.4 bits (137), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 43/161 (26%), Positives = 70/161 (43%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 40  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 98
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 99  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 157
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 158 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 198

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 57.4 bits (137), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 43/161 (26%), Positives = 70/161 (43%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 130
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 131 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 171

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 57.4 bits (137), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 43/161 (26%), Positives = 70/161 (43%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 130
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 131 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 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 = 57.0 bits (136), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 43/161 (26%), Positives = 70/161 (43%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 130
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 131 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 171

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 57.0 bits (136), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 43/161 (26%), Positives = 70/161 (43%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 23  AVGKTCLLISYTTNAFSGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 81
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 82  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 140
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 141 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 181

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 57.0 bits (136), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 43/161 (26%), Positives = 70/161 (43%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 32  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 90
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 91  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 149
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 150 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 190

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 55.8 bits (133), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 43/174 (24%), Positives = 74/174 (42%), Gaps = 16/174 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAG E Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 130
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
                 +   +G   A+E G + +LE SA +   +  +F E  + +    P ++
Sbjct: 131 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPPVKK 184

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 55.8 bits (133), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 43/174 (24%), Positives = 74/174 (42%), Gaps = 16/174 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAG E Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 130
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
                 +   +G   A+E G + +LE SA +   +  +F E  + +    P ++
Sbjct: 131 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPPVKK 184

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 42/161 (26%), Positives = 70/161 (43%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 14  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 72
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   P+  + LV  K+DL + +       
Sbjct: 73  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPHTPILLVGTKLDLRDDKDTIERLR 131
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 132 DKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDE 172

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 72/151 (47%), Gaps = 10/151 (6%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAP 59
             GKT L+L F KG+      + +   F  F+ V+          +WDTAGQE Y  L P
Sbjct: 33  AVGKTCLLLAFSKGEI---PTAYVPTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRP 89
Query: 60  MYYRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEE--KRKVK 116
           + Y         + + +  SF+  + KW  E++   +    + LV  KVDL +     V 
Sbjct: 90  LSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTV-LVGLKVDLRKDGSDDVT 148
Query: 117 NEEGELYAQENG-LSFLETSAKSAHNVNELF 146
            +EG+   Q+ G ++++E S+ +   +NE+F
Sbjct: 149 KQEGDDLCQKLGCVAYIEASSVAKIGLNEVF 179

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 72/151 (47%), Gaps = 10/151 (6%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAP 59
             GKT L+L F KG+      + +   F  F+ V+          +WDTAGQE Y  L P
Sbjct: 32  AVGKTCLLLAFSKGEI---PTAYVPTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRP 88
Query: 60  MYYRGXXXXXXXYDITSMDSFER-AKKWVQELQRQGNPNLIMFLVANKVDLEE--KRKVK 116
           + Y         + + +  SF+  + KW  E++   +    + LV  KVDL +     V 
Sbjct: 89  LSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTV-LVGLKVDLRKDGSDDVT 147
Query: 117 NEEGELYAQENG-LSFLETSAKSAHNVNELF 146
            +EG+   Q+ G ++++E S+ +   +NE+F
Sbjct: 148 KQEGDDLCQKLGCVAYIEASSVAKIGLNEVF 178

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 42/161 (26%), Positives = 70/161 (43%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   P+  + LV  K+DL + +       
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPHTPILLVGTKLDLRDDKDTIERLR 130
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 131 DKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDE 171

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 42/161 (26%), Positives = 70/161 (43%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 14  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 72
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   P+  + LV  K+DL + +       
Sbjct: 73  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPHTPILLVGTKLDLRDDKDTIERLR 131
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 132 DKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDE 172

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 42/161 (26%), Positives = 69/161 (42%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +           T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 40  AVGKTCLLISYTTNALPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 98
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 99  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 157
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 158 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 198

>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 = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 42/161 (26%), Positives = 69/161 (42%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK  L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 20  AVGKNCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 78
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 79  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 137
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 138 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 178

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 40/162 (24%), Positives = 71/162 (43%), Gaps = 16/162 (9%)
Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           +  GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+
Sbjct: 18  VAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDSKPVNLGLWDTAGQEDYDRLRPL 76
Query: 61  YYRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------ 113
            Y         + + S  S+E  + KW  E+ R   P+  + LV  K+DL + +      
Sbjct: 77  SYPQTDVFLICFSLVSPASYENVRAKWFPEV-RHHCPSTPIILVGTKLDLRDDKDTIEKL 135
Query: 114 ------KVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYE 148
                  +   +G   A+E + + +LE SA +   +  +F E
Sbjct: 136 KEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDE 177

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 40/162 (24%), Positives = 71/162 (43%), Gaps = 16/162 (9%)
Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           +  GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+
Sbjct: 19  VAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDSKPVNLGLWDTAGQEDYDRLRPL 77
Query: 61  YYRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------ 113
            Y         + + S  S+E  + KW  E+ R   P+  + LV  K+DL + +      
Sbjct: 78  SYPQTDVFLICFSLVSPASYENVRAKWFPEV-RHHCPSTPIILVGTKLDLRDDKDTIEKL 136
Query: 114 ------KVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYE 148
                  +   +G   A+E + + +LE SA +   +  +F E
Sbjct: 137 KEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDE 178

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 54.7 bits (130), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 42/161 (26%), Positives = 69/161 (42%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAG E Y  L P+ 
Sbjct: 16  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLEDYDRLRPLS 74
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 75  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 133
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 134 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 174

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 54.7 bits (130), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 42/161 (26%), Positives = 69/161 (42%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAG E Y  L P+ 
Sbjct: 40  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLEDYDRLRPLS 98
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 99  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 157
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 158 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 198

>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 = 54.3 bits (129), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 47/172 (27%), Positives = 81/172 (47%), Gaps = 23/172 (13%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            GKT+L+  F K  F    E+ +   F  +T    ++   I+  +WDT+G   Y ++ P+
Sbjct: 39  CGKTALLHVFAKDCF---PENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPL 95
Query: 61  YYRGXXXXXXXYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDL---------- 109
            Y         +DI+  ++ +   KKW  E+Q +  PN  M LV  K DL          
Sbjct: 96  SYPDSDAVLICFDISRPETLDSVLKKWKGEIQ-EFCPNTKMLLVGCKSDLRTDVSTLVEL 154
Query: 110 --EEKRKVKNEEGELYAQENG-LSFLETSA-KSAHNVNELFYEIAKRLAEVN 157
               +  V  ++G   A++ G  +++E SA +S ++V ++F+     LA VN
Sbjct: 155 SNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFH--VATLACVN 204

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 53.9 bits (128), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 47/172 (27%), Positives = 81/172 (47%), Gaps = 23/172 (13%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            GKT+L+  F K  F    E+ +   F  +T    ++   I+  +WDT+G   Y ++ P+
Sbjct: 18  CGKTALLHVFAKDCF---PENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPL 74
Query: 61  YYRGXXXXXXXYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDL---------- 109
            Y         +DI+  ++ +   KKW  E+Q +  PN  M LV  K DL          
Sbjct: 75  SYPDSDAVLICFDISRPETLDSVLKKWKGEIQ-EFCPNTKMLLVGCKSDLRTDVSTLVEL 133
Query: 110 --EEKRKVKNEEGELYAQENG-LSFLETSA-KSAHNVNELFYEIAKRLAEVN 157
               +  V  ++G   A++ G  +++E SA +S ++V ++F+     LA VN
Sbjct: 134 SNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFH--VATLACVN 183

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 53.5 bits (127), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 47/172 (27%), Positives = 81/172 (47%), Gaps = 23/172 (13%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            GKT+L+  F K  F    E+ +   F  +T    ++   I+  +WDT+G   Y ++ P+
Sbjct: 34  CGKTALLHVFAKDCF---PENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPL 90
Query: 61  YYRGXXXXXXXYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDL---------- 109
            Y         +DI+  ++ +   KKW  E+Q +  PN  M LV  K DL          
Sbjct: 91  SYPDSDAVLICFDISRPETLDSVLKKWKGEIQ-EFCPNTKMLLVGCKSDLRTDVSTLVEL 149
Query: 110 --EEKRKVKNEEGELYAQENG-LSFLETSA-KSAHNVNELFYEIAKRLAEVN 157
               +  V  ++G   A++ G  +++E SA +S ++V ++F+     LA VN
Sbjct: 150 SNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFH--VATLACVN 199

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 53.1 bits (126), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 45/157 (28%), Positives = 70/157 (44%), Gaps = 7/157 (4%)
Query: 2   GTGKTSLVLRFVK-GQFFDFQESTIGAAFFTQVLSLN---EVTIKFDIWDTAGQERYHSL 57
           G GK++L   F       D     +G   + + L ++      I  D+W+  G+  +  L
Sbjct: 16  GVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--L 73
Query: 58  APMYYRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVK 116
                +        Y IT   SFE+A +   +L+R +   ++ + LV NK DL   R+V 
Sbjct: 74  HDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVS 133
Query: 117 NEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             EG   A      F+ETSA   HNV ELF  I +++
Sbjct: 134 VSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 170

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 53.1 bits (126), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 45/157 (28%), Positives = 70/157 (44%), Gaps = 7/157 (4%)
Query: 2   GTGKTSLVLRFVK-GQFFDFQESTIGAAFFTQVLSLN---EVTIKFDIWDTAGQERYHSL 57
           G GK++L   F       D     +G   + + L ++      I  D+W+  G+  +  L
Sbjct: 16  GVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--L 73
Query: 58  APMYYRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVK 116
                +        Y IT   SFE+A +   +L+R +   ++ + LV NK DL   R+V 
Sbjct: 74  HDHXMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVS 133
Query: 117 NEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             EG   A      F+ETSA   HNV ELF  I +++
Sbjct: 134 VSEGRAXAVVFDCKFIETSAAVQHNVKELFEGIVRQV 170

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 45/157 (28%), Positives = 70/157 (44%), Gaps = 7/157 (4%)
Query: 2   GTGKTSLVLRFVK-GQFFDFQESTIGAAFFTQVLSLN---EVTIKFDIWDTAGQERYHSL 57
           G GK++L   F       D     +G   + + L ++      I  D+W+  G+  +  L
Sbjct: 47  GVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--L 104
Query: 58  APMYYRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVK 116
                +        Y IT   SFE+A +   +L+R +   ++ + LV NK DL   R+V 
Sbjct: 105 HDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVS 164
Query: 117 NEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             EG   A      F+ETSA   HNV ELF  I +++
Sbjct: 165 VSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 201

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 45/157 (28%), Positives = 70/157 (44%), Gaps = 7/157 (4%)
Query: 2   GTGKTSLVLRFVK-GQFFDFQESTIGAAFFTQVLSLN---EVTIKFDIWDTAGQERYHSL 57
           G GK++L   F       D     +G   + + L ++      I  D+W+  G+  +  L
Sbjct: 16  GVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--L 73
Query: 58  APMYYRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVK 116
                +        Y IT   SFE+A +   +L+R +   ++ + LV NK DL   R+V 
Sbjct: 74  HDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVS 133
Query: 117 NEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             EG   A      F+ETSA   HNV ELF  I +++
Sbjct: 134 VSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQV 170

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 41/161 (25%), Positives = 68/161 (42%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAG E Y  L P+ 
Sbjct: 165 AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLEDYDRLRPLS 223
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SF   + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 224 YPQTDVFLICFSLVSPASFHHVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 282
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 283 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 323

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 41/161 (25%), Positives = 68/161 (42%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAG E Y  L P+ 
Sbjct: 165 AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLEDYDRLRPLS 223
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SF   + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 224 YPQTDVFLICFSLVSPASFHHVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 282
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 283 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 323

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 41/161 (25%), Positives = 68/161 (42%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAG E Y  L P+ 
Sbjct: 165 AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLEDYDRLRPLS 223
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------- 113
           Y         + + S  SF   + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 224 YPQTDVFLICFSLVSPASFHHVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 282
Query: 114 -----KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 283 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 323

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 40/161 (24%), Positives = 71/161 (44%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F +    T+   +   V ++        ++DTAGQE Y  L P+ 
Sbjct: 28  AVGKTCLLMSYANDAFPEEYVPTVFDHYAVSV-TVGGKQYLLGLYDTAGQEDYDRLRPLS 86
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRK------ 114
           Y         + + +  SF+  K +WV EL+    PN+   L+  ++DL +  K      
Sbjct: 87  YPMTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPFLLIGTQIDLRDDPKTLARLN 145
Query: 115 ------VKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
                 +  E+G+  A+E G   ++E SA +   +  +F E
Sbjct: 146 DMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDE 186

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 43/173 (24%), Positives = 72/173 (41%), Gaps = 18/173 (10%)
Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           +  GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+
Sbjct: 12  VAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPL 70
Query: 61  YYRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE-------- 111
            Y         + + S  SFE  K KWV E+     P     LV  ++DL +        
Sbjct: 71  SYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKL 129
Query: 112 ----KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
               ++ +  E  E  A++   + ++E SA +   +  +F E    LA + P 
Sbjct: 130 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI--LAALEPP 180

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 43/172 (25%), Positives = 71/172 (41%), Gaps = 18/172 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 16  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 74
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 75  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 133
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
              ++ +  E  E  A++   + ++E SA +   +  +F E    LA + P 
Sbjct: 134 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI--LAALEPP 183

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 43/172 (25%), Positives = 71/172 (41%), Gaps = 18/172 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 15  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 73
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 74  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 132
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
              ++ +  E  E  A++   + ++E SA +   +  +F E    LA + P 
Sbjct: 133 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI--LAALEPP 182

>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 = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 43/172 (25%), Positives = 71/172 (41%), Gaps = 18/172 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 16  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 74
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 75  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 133
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
              ++ +  E  E  A++   + ++E SA +   +  +F E    LA + P 
Sbjct: 134 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI--LAALEPP 183

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 43/172 (25%), Positives = 71/172 (41%), Gaps = 18/172 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 130
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
              ++ +  E  E  A++   + ++E SA +   +  +F E    LA + P 
Sbjct: 131 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI--LAALEPP 180

>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 = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 43/172 (25%), Positives = 71/172 (41%), Gaps = 18/172 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 130
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
              ++ +  E  E  A++   + ++E SA +   +  +F E    LA + P 
Sbjct: 131 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI--LAALEPP 180

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 43/172 (25%), Positives = 71/172 (41%), Gaps = 18/172 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 20  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 78
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 79  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 137
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
              ++ +  E  E  A++   + ++E SA +   +  +F E    LA + P 
Sbjct: 138 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI--LAALEPP 187

>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 = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 43/172 (25%), Positives = 71/172 (41%), Gaps = 18/172 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 14  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 72
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 73  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 131
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
              ++ +  E  E  A++   + ++E SA +   +  +F E    LA + P 
Sbjct: 132 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI--LAALEPP 181

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 51.2 bits (121), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 43/172 (25%), Positives = 71/172 (41%), Gaps = 18/172 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 130
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
              ++ +  E  E  A++   + ++E SA +   +  +F E    LA + P 
Sbjct: 131 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI--LAALEPP 180

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 43/172 (25%), Positives = 71/172 (41%), Gaps = 18/172 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 23  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 81
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 82  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 140
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
              ++ +  E  E  A++   + ++E SA +   +  +F E    LA + P 
Sbjct: 141 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI--LAALEPP 190

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 40/161 (24%), Positives = 67/161 (41%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 130
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYE 148
              ++ +  E  E  A++   + ++E SA +   +  +F E
Sbjct: 131 KNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDE 171

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 40/161 (24%), Positives = 67/161 (41%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 130
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYE 148
              ++ +  E  E  A++   + ++E SA +   +  +F E
Sbjct: 131 KNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDE 171

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 40/161 (24%), Positives = 67/161 (41%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 17  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 75
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 76  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 134
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYE 148
              ++ +  E  E  A++   + ++E SA +   +  +F E
Sbjct: 135 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDE 175

>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 = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 40/161 (24%), Positives = 67/161 (41%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 15  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 73
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 74  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 132
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYE 148
              ++ +  E  E  A++   + ++E SA +   +  +F E
Sbjct: 133 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDE 173

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 43/171 (25%), Positives = 71/171 (41%), Gaps = 18/171 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 130
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNP 158
              ++ +  E  E  A++   + ++E SA +   +  +F E    LA + P
Sbjct: 131 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI--LAALEP 179

>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 = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 40/161 (24%), Positives = 67/161 (41%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 130
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYE 148
              ++ +  E  E  A++   + ++E SA +   +  +F E
Sbjct: 131 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDE 171

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 50.1 bits (118), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 47/190 (24%), Positives = 74/190 (38%), Gaps = 35/190 (18%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V+ ++   +   +WDTAGQE Y  L P+ 
Sbjct: 15  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQEDYDRLRPLS 73
Query: 62  YRGXXXXXXXYDIT-------------------SMDSFERAK-KWVQELQRQGNPNLIMF 101
           Y          DIT                   S  SFE  + KW  E+ R   PN  + 
Sbjct: 74  YPQTVGETYGKDITSRGKDKPIADVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPII 132
Query: 102 LVANKVDLEEKR------------KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYE 148
           LV  K+DL + +             +   +G   A+E G + +LE SA +   +  +F E
Sbjct: 133 LVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDE 192
Query: 149 IAKRLAEVNP 158
             + +    P
Sbjct: 193 AIRAVLCPPP 202

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 49.7 bits (117), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 43/172 (25%), Positives = 70/172 (40%), Gaps = 18/172 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V    E      ++DTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVXIGGE-PYTLGLFDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 130
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
              ++ +  E  E  A++   + ++E SA +   +  +F E    LA + P 
Sbjct: 131 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI--LAALEPP 180

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 29/83 (34%), Positives = 45/83 (54%), Gaps = 1/83 (1%)
Query: 72  YDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLS 130
           Y +T   SFE+A +   +L+R +   ++ + LV NK DL   R+V  +EG   A      
Sbjct: 80  YSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCK 139
Query: 131 FLETSAKSAHNVNELFYEIAKRL 153
           F+ETSA   HNV  LF  + +++
Sbjct: 140 FIETSAALHHNVQALFEGVVRQI 162

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 44/158 (27%), Positives = 73/158 (46%), Gaps = 13/158 (8%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN--EVTIK-FDIWDTAGQERY--HS 56
           G GK++L   F  G   D  E+      + + + ++  E ++  +DIW+  G      H 
Sbjct: 17  GVGKSALARIF--GGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHC 74
Query: 57  LAPMYYRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKV 115
           +A             Y +T   SFE+A +   +L+R +   ++ + LV NK DL   R+V
Sbjct: 75  MAM-----GDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREV 129
Query: 116 KNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             +EG   A      F+ETSA   HNV  LF  + +++
Sbjct: 130 SVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 167

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 40/161 (24%), Positives = 66/161 (40%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      + DTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLRDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 130
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYE 148
              ++ +  E  E  A++   + ++E SA +   +  +F E
Sbjct: 131 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDE 171

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 39/163 (23%), Positives = 67/163 (41%), Gaps = 20/163 (12%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAP 59
             GKT L++ +   +F       + A F  +   + +        ++DTAGQE Y  L P
Sbjct: 13  AVGKTCLLISYTTNKF---PSEYVPAVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRP 69
Query: 60  MYYRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE------- 111
           + Y         + + S  SFE  K KWV E+     P     LV  ++DL +       
Sbjct: 70  LSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEK 128
Query: 112 -----KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYE 148
                ++ +  E  E  A++   + ++E SA +   +  +F E
Sbjct: 129 LAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDE 171

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 44/158 (27%), Positives = 73/158 (46%), Gaps = 13/158 (8%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN--EVTIK-FDIWDTAGQERY--HS 56
           G GK++L   F  G   D  E+      + + + ++  E ++  +DIW+  G      H 
Sbjct: 17  GVGKSALARIF--GGVEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHC 74
Query: 57  LAPMYYRGXXXXXXXYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKV 115
           +A             Y +T   SFE+A +   +L+R +   ++ + LV NK DL   R+V
Sbjct: 75  MAM-----GDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREV 129
Query: 116 KNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             +EG   A      F+ETSA   HNV  LF  + +++
Sbjct: 130 SVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 167

>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 = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 42/172 (24%), Positives = 70/172 (40%), Gaps = 18/172 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK  L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 20  AVGKNCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 78
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 79  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 137
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
              ++ +  E  E  A++   + ++E SA +   +  +F E    LA + P 
Sbjct: 138 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI--LAALEPP 187

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 39/161 (24%), Positives = 66/161 (40%), Gaps = 16/161 (9%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +       T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNKLPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 130
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYE 148
              ++ +  E  E  A++   + ++E SA +   +  +F E
Sbjct: 131 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDE 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 = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 42/172 (24%), Positives = 70/172 (40%), Gaps = 18/172 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAG E Y  L P+ 
Sbjct: 17  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGLEDYDRLRPLS 75
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 76  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 134
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
              ++ +  E  E  A++   + ++E SA +   +  +F E    LA + P 
Sbjct: 135 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI--LAALEPP 184

>pdb|3CBQ|A Chain A, Crystal Structure Of The Human Rem2 Gtpase With Bound Gdp Length = 195

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 40/115 (34%), Positives = 52/115 (45%), Gaps = 12/115 (10%)
Query: 38  EVT-IKFDIW---DTAGQERYHSLAPMYYRGXXXXXXXYDITSMDSFERAKKWVQELQRQ 93
           EVT + +DIW   D  G  R H L     +        + +T   SF +  + +  L R 
Sbjct: 71  EVTLVVYDIWEQGDAGGWLRDHCL-----QTGDAFLIVFSVTDRRSFSKVPETLLRL-RA 124
Query: 94  GNP--NLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELF 146
           G P  +L + LV NK DL   R+V  EEG   A       +ETSA   HN  ELF
Sbjct: 125 GRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELF 179

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 42/172 (24%), Positives = 70/172 (40%), Gaps = 18/172 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAG E Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGLEDYDRLRPLS 71
Query: 62  YRGXXXXXXXYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------- 111
           Y         + + S  SFE  K KWV E+     P     LV  ++DL +         
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLA 130
Query: 112 ---KRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
              ++ +  E  E  A++   + ++E SA +   +  +F E    LA + P 
Sbjct: 131 KNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI--LAALEPP 180

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 47.8 bits (112), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 67/150 (44%), Gaps = 18/150 (12%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
           +GKT+ V     GQF +    T+G  F  + ++   VTIK  +WD  GQ R+ S+   Y 
Sbjct: 33  SGKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGNVTIK--LWDIGGQPRFRSMWERYC 88
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQEL----QRQGNPNLIMFLVANKVD----LEEKRK 114
           RG        D    +  E +K  +  L    Q QG P L++    NK D    L+EK  
Sbjct: 89  RGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVL---GNKRDLPGALDEKEL 145
Query: 115 VKNEEGELYA-QENGLSFLETSAKSAHNVN 143
           +  E+  L A Q+  +     S K   N++
Sbjct: 146 I--EKMNLSAIQDREICCYSISCKEKDNID 173

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 68/150 (45%), Gaps = 18/150 (12%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
           +GKT+ V     GQF +    T+G  F  + ++   VTIK  IWD  GQ R+ S+   Y 
Sbjct: 33  SGKTTFVNVIASGQFSEDMIPTVG--FNMRKVTKGNVTIK--IWDIGGQPRFRSMWERYC 88
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQEL----QRQGNPNLIMFLVANKVD----LEEKRK 114
           RG        D    +  E ++  +  L    Q QG P L++    NK D    L+EK+ 
Sbjct: 89  RGVNAIVYMIDAADREKIEASRNELHNLLDKPQLQGIPVLVL---GNKRDLPNALDEKQL 145
Query: 115 VKNEEGELYA-QENGLSFLETSAKSAHNVN 143
           +  E+  L A Q+  +     S K   N++
Sbjct: 146 I--EKMNLSAIQDREICCYSISCKEKDNID 173

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 39/160 (24%), Positives = 72/160 (45%), Gaps = 24/160 (15%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            GKT+++    K  +    E+ +   F  +T  L   E  ++  +WDT+G   Y ++ P+
Sbjct: 21  CGKTAMLQVLAKDCY---PETYVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPL 77
Query: 61  YYRGXXXXXXXYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDL---------- 109
            Y         +DI+  ++ + A KKW  E+     P+  + L+  K DL          
Sbjct: 78  CYSDSDAVLLCFDISRPETVDSALKKWRTEI-LDYCPSTRVLLIGCKTDLRTDLSTLMEL 136
Query: 110 --EEKRKVKNEEGELYAQENGLS-FLE----TSAKSAHNV 142
             +++  +  E+G   A++ G   +LE    TS KS H++
Sbjct: 137 SHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSI 176

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 39/160 (24%), Positives = 72/160 (45%), Gaps = 24/160 (15%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            GKT+++    K  +    E+ +   F  +T  L   E  ++  +WDT+G   Y ++ P+
Sbjct: 22  CGKTAMLQVLAKDCY---PETYVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPL 78
Query: 61  YYRGXXXXXXXYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDL---------- 109
            Y         +DI+  ++ + A KKW  E+     P+  + L+  K DL          
Sbjct: 79  CYSDSDAVLLCFDISRPETVDSALKKWRTEI-LDYCPSTRVLLIGCKTDLRTDLSTLMEL 137
Query: 110 --EEKRKVKNEEGELYAQENGLS-FLE----TSAKSAHNV 142
             +++  +  E+G   A++ G   +LE    TS KS H++
Sbjct: 138 SHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSI 177

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score = 47.4 bits (111), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 39/160 (24%), Positives = 72/160 (45%), Gaps = 24/160 (15%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            GKT+++    K  +    E+ +   F  +T  L   E  ++  +WDT+G   Y ++ P+
Sbjct: 38  CGKTAMLQVLAKDCY---PETYVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPL 94
Query: 61  YYRGXXXXXXXYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDL---------- 109
            Y         +DI+  ++ + A KKW  E+     P+  + L+  K DL          
Sbjct: 95  CYSDSDAVLLCFDISRPETVDSALKKWRTEI-LDYCPSTRVLLIGCKTDLRTDLSTLMEL 153
Query: 110 --EEKRKVKNEEGELYAQENGLS-FLE----TSAKSAHNV 142
             +++  +  E+G   A++ G   +LE    TS KS H++
Sbjct: 154 SHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSI 193

>pdb|3Q85|A Chain A, Crystal Structure Of Rem2 G-Domain -Gtp Analog Complex Length = 169

Iteration: 1
 Score = 47.0 bits (110), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 40/115 (34%), Positives = 51/115 (44%), Gaps = 12/115 (10%)
Query: 38  EVT-IKFDIW---DTAGQERYHSLAPMYYRGXXXXXXXYDITSMDSFERAKKWVQELQRQ 93
           EVT I +DIW   D  G  + H L              + +T   SF +  + +  L R 
Sbjct: 50  EVTLIVYDIWEQGDAGGWLQDHCLQT-----GDAFLIVFSVTDRRSFSKVPETLLRL-RA 103
Query: 94  GNP--NLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELF 146
           G P  +L + LV NK DL   R+V  EEG   A       +ETSA   HN  ELF
Sbjct: 104 GRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELF 158

>pdb|4AII|A Chain A, Crystal Structure Of The Rat Rem2 Gtpase - G Domain Bound To Gdp Length = 180

Iteration: 1
 Score = 47.0 bits (110), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 40/115 (34%), Positives = 51/115 (44%), Gaps = 12/115 (10%)
Query: 38  EVT-IKFDIW---DTAGQERYHSLAPMYYRGXXXXXXXYDITSMDSFERAKKWVQELQRQ 93
           EVT I +DIW   D  G  + H L              + +T   SF +  + +  L R 
Sbjct: 60  EVTLIVYDIWEQGDAGGWLQDHCLQT-----GDAFLIVFSVTDRRSFSKVPETLLRL-RA 113
Query: 94  GNP--NLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELF 146
           G P  +L + LV NK DL   R+V  EEG   A       +ETSA   HN  ELF
Sbjct: 114 GRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELF 168

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 47.0 bits (110), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 45/150 (30%), Positives = 67/150 (44%), Gaps = 18/150 (12%)
Query: 3   TGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
           +GKT+ V     GQF +    T+G  F  + ++   VTIK  +WD  GQ R+ S+   Y 
Sbjct: 42  SGKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGNVTIK--LWDIGGQPRFRSMWERYC 97
Query: 63  RGXXXXXXXYDITSMDSFERAKKWVQEL----QRQGNPNLIMFLVANKVD----LEEKRK 114
           RG        D    +  E +K  +  L    Q QG P L++    NK D    L+EK  
Sbjct: 98  RGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVL---GNKRDLPGALDEKEL 154
Query: 115 VKNEEGELYA-QENGLSFLETSAKSAHNVN 143
           +  E+  L A Q+  +     S K   N++
Sbjct: 155 I--EKMNLSAIQDREICCYSISCKEKDNID 182

>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 = 9e-06,   Method: Compositional matrix adjust.
 Identities = 34/117 (29%), Positives = 52/117 (44%), Gaps = 12/117 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+++ +   GQ      +TI    F  V ++    +KF++WD  GQ++   L   Y
Sbjct: 332 AAGKTTILYKLKLGQSV----TTIPTVGF-NVETVTYKNVKFNVWDVGGQDKIRPLWRHY 386
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRK 114
           Y G        D    D  + A+   QEL R  N     + I+ + ANK DL +  K
Sbjct: 387 YTGTQGLIFVVDCADRDRIDEAR---QELHRIINDREMRDAIILIFANKQDLPDAMK 440

>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex Length = 162

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 34/115 (29%), Positives = 52/115 (45%), Gaps = 12/115 (10%)
Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+++ +   GQ      +TI    F  V ++    +KF++WD  GQ++   L   YY 
Sbjct: 12  GKTTILYKLKLGQSV----TTIPTVGF-NVETVTYKNVKFNVWDVGGQDKIRPLWRHYYT 66
Query: 64  GXXXXXXXYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRK 114
           G        D    D  + A+   QEL R  N     + I+ + ANK DL +  K
Sbjct: 67  GTQGLIFVVDCADRDRIDEAR---QELHRIINDREXRDAIILIFANKQDLPDAXK 118

>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 = 34/115 (29%), Positives = 52/115 (45%), Gaps = 12/115 (10%)
Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+++ +   GQ      +TI    F  V ++    +KF++WD  GQ++   L   YY 
Sbjct: 24  GKTTILYKLKLGQ----SVTTIPTVGF-NVETVTYKNVKFNVWDVGGQDKIRPLWRHYYT 78
Query: 64  GXXXXXXXYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRK 114
           G        D    D  + A+   QEL R  N     + I+ + ANK DL +  K
Sbjct: 79  GTQGLIFVVDCADRDRIDEAR---QELHRIINDREMRDAIILIFANKQDLPDAMK 130

>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By Human Arf6-Gtp Length = 175

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 34/115 (29%), Positives = 52/115 (45%), Gaps = 12/115 (10%)
Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+++ +   GQ      +TI    F  V ++    +KF++WD  GQ++   L   YY 
Sbjct: 25  GKTTILYKLKLGQ----SVTTIPTVGF-NVETVTYKNVKFNVWDVGGQDKIRPLWRHYYT 79
Query: 64  GXXXXXXXYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRK 114
           G        D    D  + A+   QEL R  N     + I+ + ANK DL +  K
Sbjct: 80  GTQGLIFVVDCADRDRIDEAR---QELHRIINDREMRDAIILIFANKQDLPDAMK 131

>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex Length = 160

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 34/117 (29%), Positives = 52/117 (44%), Gaps = 12/117 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+++ +   GQ      +TI    F  V ++    +KF++WD  GQ++   L   Y
Sbjct: 10  AAGKTTILYKLKLGQ----SVTTIPTVGF-NVETVTYKNVKFNVWDVGGQDKIRPLWRHY 64
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRK 114
           Y G        D    D  + A+   QEL R  N     + I+ + ANK DL +  K
Sbjct: 65  YTGTQGLIFVVDCADRDRIDEAR---QELHRIINDREMRDAIILIFANKQDLPDAMK 118

>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp Length = 162

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 34/117 (29%), Positives = 52/117 (44%), Gaps = 12/117 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+++ +   GQ      +TI    F  V ++    +KF++WD  GQ++   L   Y
Sbjct: 10  AAGKTTILYKLKLGQSV----TTIPTVGF-NVETVTYKNVKFNVWDVGGQDKIRPLWRHY 64
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRK 114
           Y G        D    D  + A+   QEL R  N     + I+ + ANK DL +  K
Sbjct: 65  YTGTQGLIFVVDCADRDRIDEAR---QELHRIINDREMRDAIILIFANKQDLPDAMK 118

>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 = 33/115 (28%), Positives = 51/115 (44%), Gaps = 12/115 (10%)
Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+++ +   GQ      +TI    F  V ++    +KF++WD  G ++   L   YY 
Sbjct: 25  GKTTILYKLKLGQ----SVTTIPTVGF-NVETVTYKNVKFNVWDVGGLDKIRPLWRHYYT 79
Query: 64  GXXXXXXXYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRK 114
           G        D    D  + A+   QEL R  N     + I+ + ANK DL +  K
Sbjct: 80  GTQGLIFVVDCADRDRIDEAR---QELHRIINDREMRDAIILIFANKQDLPDAMK 131

>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like Protein 1) Complex Length = 172

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 33/117 (28%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+++ +   GQ      +TI    F  V ++    +KF++WD  G ++   L   Y
Sbjct: 12  AAGKTTILYKLKLGQSV----TTIPTVGF-NVETVTYKNVKFNVWDVGGLDKIRPLWRHY 66
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRK 114
           Y G        D    D  + A+   QEL R  N     + I+ + ANK DL +  K
Sbjct: 67  YTGTQGLIFVVDCADRDRIDEAR---QELHRIINDREMRDAIILIFANKQDLPDAMK 120

>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 = 1e-04,   Method: Compositional matrix adjust.
 Identities = 33/117 (28%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+++ +   GQ      +TI    F  V ++    +KF++WD  G ++   L   Y
Sbjct: 13  AAGKTTILYKLKLGQ----SVTTIPTVGF-NVETVTYKNVKFNVWDVGGLDKIRPLWRHY 67
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRK 114
           Y G        D    D  + A+   QEL R  N     + I+ + ANK DL +  K
Sbjct: 68  YTGTQGLIFVVDCADRDRIDEAR---QELHRIINDREMRDAIILIFANKQDLPDAMK 121

>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 = 40.8 bits (94), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 31/111 (27%), Positives = 48/111 (43%), Gaps = 6/111 (5%)
Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT+++ +   G+      +TI    F  V ++    I F +WD  GQ+R  SL   Y
Sbjct: 27  GAGKTTVLYKLKLGEVI----TTIPTIGF-NVETVQYKNISFTVWDVGGQDRIRSLWRHY 81
Query: 62  YRGXXXXXXXYDITSMDSFERAKKWVQELQRQGN-PNLIMFLVANKVDLEE 111
           YR         D         A++ +Q +  +    N +  + ANK DL E
Sbjct: 82  YRNTEGVIFVIDSNDRSRIGEAREVMQRMLNEDELRNAVWLVFANKQDLPE 132

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	181
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	2e-94
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	9e-93
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	5e-92
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	6e-92
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	8e-92
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	6e-90
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	1e-89
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	2e-80
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	3e-80
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	1e-79
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	1e-79
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	5e-79
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	2e-77
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	4e-77
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	6e-77
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	6e-76
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	1e-75
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	2e-75
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	1e-74
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	1e-74
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	2e-74
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	3e-74
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	4e-74
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	3e-73
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	5e-72
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	6e-72
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	8e-72
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	6e-71
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	1e-69
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	6e-69
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	6e-69
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	1e-68
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	2e-68
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	3e-68
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	6e-68
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	9e-68
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	1e-67
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	2e-67
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	2e-67
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	3e-67
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	3e-67
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	4e-67
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	6e-67
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	1e-65
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	2e-65
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	9e-64
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	5e-63
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	2e-62
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	5e-62
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	6e-62
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	2e-61
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	5e-61
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	8e-61
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	1e-60
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	1e-60
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	2e-60
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	2e-60
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	4e-59
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	1e-58
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	5e-58
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	1e-57
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	3e-57
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	4e-57
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	4e-57
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	2e-56
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	4e-56
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	2e-55
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	2e-55
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	5e-55
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	7e-50
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	5e-40
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	2e-37
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	3e-37
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	7e-37
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	5e-36
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	6e-36
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	2e-35
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	4e-35
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	5e-34
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	2e-33
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	1e-32
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	3e-31
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	2e-30
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	3e-28
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	5e-23
3llu_A	196	RAS-related GTP-binding protein C; structural geno	1e-16
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	5e-15
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	2e-14
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	3e-11
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	2e-10
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	3e-09
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	3e-09
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	3e-09
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	3e-09
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	4e-09
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	1e-08
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	1e-08
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	1e-08
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	1e-08
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	2e-08
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	2e-08
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	4e-08
2fh5_B	214	SR-beta, signal recognition particle receptor beta	4e-08
1nrj_B	218	SR-beta, signal recognition particle receptor beta	2e-07
2ged_A	193	SR-beta, signal recognition particle receptor beta	4e-07
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	9e-07
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	3e-06
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	5e-06
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	5e-05
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	6e-05
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	1e-04
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	2e-04
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	3e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04

>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 =  270 bits (694), Expect = 2e-94
 Identities = 111/159 (69%), Positives = 135/159 (84%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           +G GK+SLVLRFVK QF +FQESTIGAAFF+Q L++N+ T+KF+IWDTAGQERYHSLAPM
Sbjct: 21  VGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPM 80

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAAAA++V+D+T+  SFERAKKWVQELQ QGNPN++M L  NK DL + RKV  E+ 
Sbjct: 81  YYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDA 140

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
           + YAQENGL F+ETSAK+A NV E+FYEIA+RL  V P+
Sbjct: 141 QTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPT 179

>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 =  267 bits (684), Expect = 9e-93
 Identities = 78/159 (49%), Positives = 107/159 (67%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            G GK+S+V RFV+  F      TIGA+F T+ +       KF IWDTAGQER+HSLAPM
Sbjct: 32  TGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPM 91

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRG+AAAV+VYDIT  DSF   KKWV+EL+  G  N++M +  NK DL + R+V  ++ 
Sbjct: 92  YYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDA 151

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
           + YA+  G   +ETSAK+A N+ ELF  I++++  ++P 
Sbjct: 152 KEYAESIGAIVVETSAKNAINIEELFQGISRQIPPLDPH 190

>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 =  264 bits (677), Expect = 5e-92
 Identities = 100/155 (64%), Positives = 124/155 (80%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
              GK+SLVLRFVKGQF +FQESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPM
Sbjct: 15  SAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPM 74

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGA AA+VVYDIT+ +SF RAK WV+ELQRQ +PN+++ L  NK DL  KR V  +E 
Sbjct: 75  YYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEA 134

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
           + YA +N L F+ETSAK++ NVNE+F  IAK+L +
Sbjct: 135 QSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>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 =  264 bits (677), Expect = 6e-92
 Identities = 71/153 (46%), Positives = 103/153 (67%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            G GK+S++ RFV+  F      TIGA+F T+ +       KF IWDTAG ER+ +LAPM
Sbjct: 15  TGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPM 74

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRG+AAA++VYDIT  ++F   K WV+EL++ G P++++ +  NK DL + R+V   + 
Sbjct: 75  YYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDA 134

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           + YA      F+ETSAK+A N+NELF EI++R+
Sbjct: 135 KDYADSIHAIFVETSAKNAININELFIEISRRI 167

>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 =  265 bits (680), Expect = 8e-92
 Identities = 70/186 (37%), Positives = 109/186 (58%), Gaps = 6/186 (3%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
              GKTSL+ RF+   F +  ++TIG  F ++ + L + T++  +WDTAG ER+ SL P 
Sbjct: 25  QSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLERFRSLIPS 84

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           Y R +  AVVVYDIT+++SF++  KW+ +++ +   ++I+ LV NK DL +KR+V  EEG
Sbjct: 85  YIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEG 144

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL------AEVNPSRQTGMKLHTESHGGG 174
           E  A+E  + F+ETSAK+ +NV +LF  +A  L       + +      +KL        
Sbjct: 145 ERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDMIDIKLEKPQEQPV 204

Query: 175 RRGFCC 180
             G C 
Sbjct: 205 SEGGCL 210

>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 =  259 bits (664), Expect = 6e-90
 Identities = 68/155 (43%), Positives = 101/155 (65%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
              GKTSLVLR+ + +F D   +T+GA+F T+ L++    +   IWDTAGQER+H+L P+
Sbjct: 15  GCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPI 74

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYR +  A++VYDIT  DSF++ K WV+EL++     + + +V NK+DLE++R V  +E 
Sbjct: 75  YYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEA 134

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
           E YA+  G     TSAK    + ELF ++ KR+ E
Sbjct: 135 ESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 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 =  259 bits (663), Expect = 1e-89
 Identities = 67/153 (43%), Positives = 101/153 (66%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
              GKTSL+ RF+   F +  ++TIG  F ++ + L + T++  +WDTAGQER+ SL P 
Sbjct: 23  QSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPS 82

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           Y R +  AVVVYDIT+ +SF +  KW+ +++ +   ++I+ LV NK DL +KR+V  EEG
Sbjct: 83  YIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEG 142

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           E  A+E  + F+ETSAK+ +NV +LF  +A  L
Sbjct: 143 ERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 175

>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 =  235 bits (602), Expect = 2e-80
 Identities = 52/164 (31%), Positives = 83/164 (50%), Gaps = 4/164 (2%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN-EVTIKFDIWDTAGQERYHSLAP 59
             +GKTSL   F +  F    + TIG  FF + ++L   + +   IWD  GQ     +  
Sbjct: 15  GASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLD 74

Query: 60  MYYRGAAAAVVVYDITSMDSFERAKKW---VQELQRQGNPNLIMFLVANKVDLEEKRKVK 116
            Y  GA   ++VYDIT+  SFE  + W   V+++  +     ++ LV NK+DLE  R +K
Sbjct: 75  KYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIK 134

Query: 117 NEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSR 160
            E+   + QENG S    SAK+  +V   F ++A  +  +  ++
Sbjct: 135 PEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIKLNK 178

>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 =  236 bits (605), Expect = 3e-80
 Identities = 48/165 (29%), Positives = 81/165 (49%), Gaps = 1/165 (0%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQ-VLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           G GKT+ + R + G+F     +T+GA       L      IKF++WDTAGQE+   L  +
Sbjct: 21  GVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDV 80

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YY GA+ A++ +D+TS  + +   +WV+E Q        + + ANK+D++ ++K+  +  
Sbjct: 81  YYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLV 140

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMK 165
               +     + E SAK+AHN    F  +A+              
Sbjct: 141 MEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLIFVSNV 185

>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 =  234 bits (599), Expect = 1e-79
 Identities = 66/175 (37%), Positives = 101/175 (57%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            G GK++L+ RF + +F    +STIG  F T+ + ++  TIK  IWDTAGQERY  +   
Sbjct: 14  SGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSA 73

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGA  A++VYDI    ++E  ++W++EL+   + N+++ LV NK DL   R V  +E 
Sbjct: 74  YYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEA 133

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGR 175
             +A++N LSF+ETSA  + NV E F  I   +  +   +Q   +   +   G  
Sbjct: 134 RAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIADRAAHDESPGNN 188

>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 =  234 bits (598), Expect = 1e-79
 Identities = 60/153 (39%), Positives = 91/153 (59%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            G GKT+L+ RF + +F     +TIG  F T+ + L    +K  IWDTAG ERY ++   
Sbjct: 34  SGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSA 93

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGA  A++V+D+T   ++   ++W++EL       +++ LV NK DL + R+V  EE 
Sbjct: 94  YYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEA 153

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            ++A+ NGL FLETSA  + NV   F  + K +
Sbjct: 154 RMFAENNGLLFLETSALDSTNVELAFETVLKEI 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 =  232 bits (594), Expect = 5e-79
 Identities = 63/153 (41%), Positives = 95/153 (62%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            G GK++L+ RF + +F    +STIG  F T+ + ++  TIK  IWDTAG ERY ++   
Sbjct: 38  SGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSA 97

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGA  A++VYDI    ++E  ++W++EL+   + N+++ LV NK DL   R V  +E 
Sbjct: 98  YYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEA 157

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             +A++NGLSF+ETSA  + NV   F  I   +
Sbjct: 158 RAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 190

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B* Length = 207

 Score =  228 bits (584), Expect = 2e-77
 Identities = 60/189 (31%), Positives = 95/189 (50%), Gaps = 10/189 (5%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKTSL+ ++V  +F +  ++TIGA F T+ + +++  +   IWDTAGQER+ SL   +
Sbjct: 18  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAF 77

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRKVKN 117
           YRGA   V+V+D+T+ ++F+    W  E   Q +P    N    ++ NK+DLE ++    
Sbjct: 78  YRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATK 137

Query: 118 EEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL------AEVNPSRQTGMKLHTESH 171
                   +N + + ETSAK A NV + F  IA+         E+       +KL     
Sbjct: 138 RAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNEFPEPIKLDKNER 197

Query: 172 GGGRRGFCC 180
                  C 
Sbjct: 198 AKASAESCS 206

>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 =  227 bits (580), Expect = 4e-77
 Identities = 65/152 (42%), Positives = 96/152 (63%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+ +F + +F      TIG  F T+++ ++   IK  IWDTAGQER+ ++   Y
Sbjct: 25  GVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSY 84

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGAA A++VYDIT   ++     W+ + +   NPN ++ L+ NK DLE +R V  EE +
Sbjct: 85  YRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAK 144

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +A+ENGL FLE SAK+  NV + F E AK++
Sbjct: 145 QFAEENGLLFLEASAKTGENVEDAFLEAAKKI 176

>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 =  228 bits (583), Expect = 6e-77
 Identities = 66/153 (43%), Positives = 93/153 (60%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            G GK++L+ RF K +F    +STIG  F T+ L +    IK  IWDTAGQERY ++   
Sbjct: 22  SGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSA 81

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGA  A++VYDI+   S+E    W+ EL+   + N+ + L+ NK DL   R V  EE 
Sbjct: 82  YYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEES 141

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           + +AQEN L F ETSA ++ NV++ F E+   +
Sbjct: 142 KTFAQENQLLFTETSALNSENVDKAFEELINTI 174

>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 =  223 bits (572), Expect = 6e-76
 Identities = 54/152 (35%), Positives = 87/152 (57%), Gaps = 1/152 (0%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+S++ R+ KG F    + TIG  F  + + +N+  ++  +WDTAGQE + ++   Y
Sbjct: 15  AVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAY 74

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA A V+V+  T  +SFE    W +++  +   ++   LV NK+DL +   +KNEE E
Sbjct: 75  YRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLLDDSCIKNEEAE 133

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             A+   L F  TS K   NV+E+F  +A++ 
Sbjct: 134 GLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKH 165

>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 =  224 bits (573), Expect = 1e-75
 Identities = 64/152 (42%), Positives = 98/152 (64%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGK+ L+ +F++ +F      TIG  F ++V+++   T+K  IWDTAGQER+ S+   Y
Sbjct: 35  GTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSY 94

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGAA A++VYDITS +++     W+ + +   +PN+++ L  NK DL+ +R+V   E  
Sbjct: 95  YRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEAS 154

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +AQEN L FLETSA +  NV E F + A+ +
Sbjct: 155 RFAQENELMFLETSALTGENVEEAFLKCARTI 186

>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 =  223 bits (571), Expect = 2e-75
 Identities = 67/153 (43%), Positives = 101/153 (66%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            G GK+ L+L+F   +F    + TIG  F  ++++++   IK  IWDTAGQE + S+   
Sbjct: 30  TGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRS 89

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAA A++VYDIT  ++F     W+++ ++  + N+++ L+ NK DLE +R VK EEG
Sbjct: 90  YYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEG 149

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           E +A+E+GL F+ETSAK+A NV E F   AK +
Sbjct: 150 EAFAREHGLIFMETSAKTACNVEEAFINTAKEI 182

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  222 bits (566), Expect = 1e-74
 Identities = 74/190 (38%), Positives = 108/190 (56%), Gaps = 40/190 (21%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIK------------------ 42
              GK+S+VLR  K  F +   +TIGA+F T V++LN++ IK                  
Sbjct: 16  SSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDN 75

Query: 43  -------------------FDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERA 83
                              FDIWDTAGQERY S+ P+YYRGA  A+VV+DI++ ++ +RA
Sbjct: 76  NVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRA 135

Query: 84  KKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVN 143
           K WV +L+   + N I+ LVANK+D   K +V   E + YAQ+N L F++TSAK+  N+ 
Sbjct: 136 KTWVNQLKI--SSNYIIILVANKIDK-NKFQVDILEVQKYAQDNNLLFIQTSAKTGTNIK 192

Query: 144 ELFYEIAKRL 153
            +FY +A+ +
Sbjct: 193 NIFYMLAEEI 202

>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 =  221 bits (565), Expect = 1e-74
 Identities = 64/152 (42%), Positives = 96/152 (63%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT LV RF +G F   Q +TIG  F  + + +N   +K  IWDTAGQER+ S+   Y
Sbjct: 36  GVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSY 95

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YR A A ++ YDIT  +SF    +W++E+++  +  +I  LV NK+DL E+R+V  +  E
Sbjct: 96  YRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAE 155

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +++   + +LETSAK + NV +LF ++A RL
Sbjct: 156 EFSEAQDMYYLETSAKESDNVEKLFLDLACRL 187

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  221 bits (565), Expect = 2e-74
 Identities = 45/180 (25%), Positives = 79/180 (43%), Gaps = 9/180 (5%)

Query: 1   MGTGKTSLVLRFVK--GQFFDFQESTIGAAFFTQVLSLNEVTIKFDIW--DTAGQERYHS 56
              GK++L+  F     +F      T G       +++ + T+  +++  DTAG + Y  
Sbjct: 29  ATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKE 88

Query: 57  LAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQ---GNPNLIMFLVANKVDLEEKR 113
               Y+ G   A++V+D++SM+SFE  K W + L+         L   LVANK DL  +R
Sbjct: 89  QISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQR 148

Query: 114 K-VKNEEGELYAQENGLSFLETSAK-SAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESH 171
             V+ +  + +A  N L F + SA     + +  F  IA         +    +    ++
Sbjct: 149 HQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYRNYEDKVAAFQDACRNY 208

>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 =  221 bits (565), Expect = 3e-74
 Identities = 49/152 (32%), Positives = 87/152 (57%), Gaps = 3/152 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +T+G      V   N   IKF++WDTAGQE++  L   Y
Sbjct: 25  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 84

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y  A  A++++D+TS  +++    W ++L R    N+ + L  NKVD+++++     +  
Sbjct: 85  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRKVK--AKSI 141

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           ++ ++  L + + SAKS +N  + F  +A++L
Sbjct: 142 VFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 173

>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 =  219 bits (561), Expect = 4e-74
 Identities = 62/153 (40%), Positives = 97/153 (63%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            GTGK+ L+ +F++ +F D    TIG  F ++++++    +K  IWDTAGQER+ S+   
Sbjct: 19  AGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRS 78

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGAA A++VYDITS +++     W+ + +   + N+++ L  NK DL+  R+V   E 
Sbjct: 79  YYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEA 138

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             +AQEN L FLETSA +  NV E F + A+++
Sbjct: 139 SRFAQENELMFLETSALTGENVEEAFVQCARKI 171

>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 =  218 bits (557), Expect = 3e-73
 Identities = 65/189 (34%), Positives = 102/189 (53%), Gaps = 9/189 (4%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            G GK+ L+LRF    + +   STIG  F  + + L+  T+K  IWDTAGQER+ ++   
Sbjct: 17  SGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSS 76

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRG+   ++VYD+T  +SF   K W+QE+ R     ++  LV NK DL++KR V+ +  
Sbjct: 77  YYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVA 136

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKR---------LAEVNPSRQTGMKLHTESH 171
           + +A  N + FLETSA  + NV + F  +A++         L E    ++    ++ +  
Sbjct: 137 KEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDKGNVNLKGQ 196

Query: 172 GGGRRGFCC 180
                G CC
Sbjct: 197 SLTNTGGCC 205

>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 =  213 bits (545), Expect = 5e-72
 Identities = 83/156 (53%), Positives = 111/156 (71%), Gaps = 3/156 (1%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
              GK+S+VLRFV   F + +E TIGAAF TQ +++NE T+KF+IWDTAGQER+ SLAP 
Sbjct: 12  AAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPX 71

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVD---LEEKRKVKN 117
           YYR A AA+VVYD+T   SF +A+ WV+EL  Q + ++I+ LV NK+D      +RKV  
Sbjct: 72  YYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAR 131

Query: 118 EEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           EEGE  A+E GL F ETSAK+  NVN++F  I +++
Sbjct: 132 EEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI 167

>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 =  214 bits (548), Expect = 6e-72
 Identities = 65/152 (42%), Positives = 91/152 (59%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  TIK  IWDTAGQER+ ++   Y
Sbjct: 43  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 102

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA   +VVYD+T  +SF   K+W+QE+ R  + N+   LV NK DL  K+ V     +
Sbjct: 103 YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 162

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +A   G+ FLETSAK+A NV + F  +A  +
Sbjct: 163 EFADSLGIPFLETSAKNATNVEQSFMTMAAEI 194

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  214 bits (547), Expect = 8e-72
 Identities = 65/153 (42%), Positives = 91/153 (59%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
            G GK+ L+LRF    + +   STIG  F  + + L+  TIK  IWDTAGQER+ ++   
Sbjct: 25  SGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSS 84

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYRGA   +VVYD+T  +SF   K+W+QE+ R  + N+   LV NK DL  K+ V     
Sbjct: 85  YYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTA 144

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           + +A   G+ FLETSAK+A NV + F  +A  +
Sbjct: 145 KEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 177

>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 =  212 bits (542), Expect = 6e-71
 Identities = 60/153 (39%), Positives = 85/153 (55%), Gaps = 1/153 (0%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT +V RF  G F + Q STIG  F  + L +    +K  IWDTAGQER+ ++   Y
Sbjct: 39  SVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSY 98

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YR A  A++ YDIT   SF     W++++++    N++  L+ NK DL E R+V   E +
Sbjct: 99  YRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQ 158

Query: 122 LYAQENG-LSFLETSAKSAHNVNELFYEIAKRL 153
             A+    L  +ETSAK + NV E F  +A  L
Sbjct: 159 SLAEHYDILCAIETSAKDSSNVEEAFLRVATEL 191

>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 =  209 bits (533), Expect = 1e-69
 Identities = 50/158 (31%), Positives = 82/158 (51%), Gaps = 6/158 (3%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+S ++R  K +F +   +T+G  F  + L ++       +WDTAGQER+ S+A  Y
Sbjct: 38  AVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSY 97

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL------EEKRKV 115
           +R A   +++YD+T   SF   ++WV  ++   +  + + LV NK D+      E ++ V
Sbjct: 98  FRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCV 157

Query: 116 KNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
               GE  A   G  F ETSAK   N+ E    +A+ +
Sbjct: 158 PGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREV 195

>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 =  206 bits (527), Expect = 6e-69
 Identities = 58/152 (38%), Positives = 92/152 (60%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT ++ RF +  F     STIG  F  + + L+   IK  IWDTAGQER+ ++   Y
Sbjct: 18  GVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAY 77

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA   ++VYDIT+  SF+  + W++ ++   + ++   ++ NK D+ +KR+V  E GE
Sbjct: 78  YRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGE 137

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             A + G+ F+ETSAK+  NV   F+ +A+ +
Sbjct: 138 KLALDYGIKFMETSAKANINVENAFFTLARDI 169

>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 =  206 bits (527), Expect = 6e-69
 Identities = 58/157 (36%), Positives = 85/157 (54%), Gaps = 5/157 (3%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH-SLAPM 60
             GKT L  RF  G+F D  E+TIG  F  + + ++   IK  +WDTAGQER+  S+   
Sbjct: 30  NVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQH 89

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRKVKNEE 119
           YYR   A V VYD+T+M SF     W++E ++    N I   LV NK DL    +V  + 
Sbjct: 90  YYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDL 149

Query: 120 GELYAQENGLSFLETSAKSAH---NVNELFYEIAKRL 153
            + +A  + +   ETSAK+ +   +V  +F  +A +L
Sbjct: 150 AQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKL 186

>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 =  206 bits (527), Expect = 1e-68
 Identities = 55/152 (36%), Positives = 80/152 (52%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKTS + R+    F     ST+G  F  + +  N+  IK  IWDTAG ERY ++   Y
Sbjct: 18  SVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAY 77

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA   +++YDIT+ +SF   + W  +++     N  + LV NK D+E++R V +E G 
Sbjct: 78  YRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGR 137

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             A   G  F E SAK   NV + F  +   +
Sbjct: 138 QLADHLGFEFFEASAKDNINVKQTFERLVDVI 169

>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 =  205 bits (525), Expect = 2e-68
 Identities = 61/153 (39%), Positives = 90/153 (58%), Gaps = 2/153 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL+LRF    F     +TIG  F  + +S++    K  IWDTAGQER+ +L P Y
Sbjct: 25  GVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSY 84

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRKVKNEEG 120
           YRGA   ++VYD+T  D+F +   W+ EL+     N I   LV NK+D  E R+V   EG
Sbjct: 85  YRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDK-ENREVDRNEG 143

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             +A+++ + F+E SAK+   V   F E+ +++
Sbjct: 144 LKFARKHSMLFIEASAKTCDGVQCAFEELVEKI 176

>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 =  205 bits (523), Expect = 3e-68
 Identities = 55/152 (36%), Positives = 82/152 (53%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKTS + R+    F     ST+G  F  + +  ++  IK  IWDTAGQERY ++   Y
Sbjct: 32  SVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAY 91

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA   +++YDI + +SF   + W  +++     N  + LV NK DLE++R V  E+G 
Sbjct: 92  YRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGR 151

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             A + G  F E SAK   NV ++F  +   +
Sbjct: 152 RLADDLGFEFFEASAKENINVKQVFERLVDVI 183

>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 =  203 bits (520), Expect = 6e-68
 Identities = 66/153 (43%), Positives = 95/153 (62%), Gaps = 1/153 (0%)

Query: 2   GTGKTSLVLRFVKGQFFDFQE-STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           G GKT L++RF  G F      ST+G  F  +VL ++ V +K  +WDTAGQER+ S+   
Sbjct: 20  GVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHA 79

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYR A A +++YD+T+  SF+  + W+ E+      ++ + L+ NKVD   +R VK E+G
Sbjct: 80  YYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDG 139

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           E  A+E GL F+ETSAK+  NV+  F  IAK L
Sbjct: 140 EKLAKEYGLPFMETSAKTGLNVDLAFTAIAKEL 172

>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 =  204 bits (520), Expect = 9e-68
 Identities = 56/152 (36%), Positives = 85/152 (55%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKTS + R+    F     ST+G  F  + +  +E  +K  IWDTAGQERY ++   Y
Sbjct: 33  SVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAY 92

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA   +++YDIT+ +SF   + W  +++     N  + LV NK D+EE+R V  E+G+
Sbjct: 93  YRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQ 152

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           L A++ G  F E SAK   +V + F  +   +
Sbjct: 153 LLAEQLGFDFFEASAKENISVRQAFERLVDAI 184

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score =  203 bits (519), Expect = 1e-67
 Identities = 58/153 (37%), Positives = 93/153 (60%), Gaps = 1/153 (0%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKTSL+ RF    F +  +ST+G  F  + + L    I+  IWDTAGQER++S+   Y
Sbjct: 36  GVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAY 95

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YR A   ++VYDIT  ++F+   KW++ + +  + +  + LV NK+D E  R++  ++GE
Sbjct: 96  YRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGE 155

Query: 122 LYAQE-NGLSFLETSAKSAHNVNELFYEIAKRL 153
            +AQ+  G+ F E SAK   NV+E+F ++   +
Sbjct: 156 KFAQQITGMRFCEASAKDNFNVDEIFLKLVDDI 188

>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 =  202 bits (517), Expect = 2e-67
 Identities = 61/165 (36%), Positives = 92/165 (55%), Gaps = 7/165 (4%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN-EVTIKFDIWDTAGQERYHSLAPM 60
           G GKTSL+ R+V  ++    ++TIGA F T+ ++++ +      +WDTAGQER+ SL   
Sbjct: 18  GVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVA 77

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEE-KRKV 115
           +YRGA   V+VYD+T+  SFE  K W  E     N          ++ NK+D EE K+ V
Sbjct: 78  FYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIV 137

Query: 116 KNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
             +  +  A+  G +    TSAK+A NV+  F EIA+   + N +
Sbjct: 138 SEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQNQA 182

>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 =  202 bits (517), Expect = 2e-67
 Identities = 52/157 (33%), Positives = 83/157 (52%), Gaps = 6/157 (3%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL+ R+V  +F      TIG  F  + L ++   +   IWDTAGQER+ SL   +
Sbjct: 17  GVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPF 76

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRKVKN 117
           YRG+   ++ + +    SF+    W +E     +     +    ++ NK+D+ E R+V  
Sbjct: 77  YRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVST 135

Query: 118 EEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRL 153
           EE + + ++NG   + ETSAK A NV   F E  +R+
Sbjct: 136 EEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 172

>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 =  202 bits (515), Expect = 3e-67
 Identities = 62/152 (40%), Positives = 94/152 (61%), Gaps = 1/152 (0%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L++RFV+ +F     +TIG  F  + + +N   +K  IWDTAGQER+ ++   Y
Sbjct: 13  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAY 72

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA   ++VYDIT   +F   K+W + +    N    + LV NK D+ E R V  ++GE
Sbjct: 73  YRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGE 131

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             A+E G+ F+E+SAK+  NVNE+F+ +AK +
Sbjct: 132 ALAKELGIPFIESSAKNDDNVNEIFFTLAKLI 163

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  202 bits (516), Expect = 3e-67
 Identities = 59/152 (38%), Positives = 88/152 (57%), Gaps = 1/152 (0%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL+LRF    F     +TIG  F  + + +N   +K  IWDTAGQER+ ++   Y
Sbjct: 19  GVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTY 78

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG    +VVYD+TS +SF   K+W+ E+ +    ++   LV NK D  E++ V+ E+  
Sbjct: 79  YRGTHGVIVVYDVTSAESFVNVKRWLHEINQNC-DDVCRILVGNKNDDPERKVVETEDAY 137

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +A + G+   ETSAK   NV E+F  I + +
Sbjct: 138 KFAGQMGIQLFETSAKENVNVEEMFNCITELV 169

>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 =  202 bits (517), Expect = 4e-67
 Identities = 60/152 (39%), Positives = 94/152 (61%), Gaps = 1/152 (0%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L++RFV+ +F     +TIG  F  + + +N   +K  +WDTAGQER+ ++   Y
Sbjct: 30  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAY 89

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA   ++VYD+T   +F   K+W + +    N    + LV NK D+ E R V  ++GE
Sbjct: 90  YRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGE 148

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             A+E G+ F+E+SAK+  NVNE+F+ +AK +
Sbjct: 149 ALAKELGIPFIESSAKNDDNVNEIFFTLAKLI 180

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  202 bits (515), Expect = 6e-67
 Identities = 49/161 (30%), Positives = 87/161 (54%), Gaps = 2/161 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKTSL  +FV+G+F +  + T+    ++++++L +      + DTAGQ+ Y  L   +
Sbjct: 34  CVGKTSLAHQFVEGEFSEGYDPTVEN-TYSKIVTLGKDEFHLHLVDTAGQDEYSILPYSF 92

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
             G    V+VY +TS+ SF+  +   Q+L    G   + + LV NK DL  +R+V+  EG
Sbjct: 93  IIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEG 152

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
           +  A+  G +F+E+SA+       +F ++ + +A V  S  
Sbjct: 153 KKLAESWGATFMESSARENQLTQGIFTKVIQEIARVENSYG 193

>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 =  199 bits (508), Expect = 1e-65
 Identities = 48/184 (26%), Positives = 86/184 (46%), Gaps = 11/184 (5%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN----------EVTIKFDIWDTAG 50
            G GKT+ + R+   +F     +T+G  F  + +  N             +   +WDTAG
Sbjct: 34  SGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAG 93

Query: 51  QERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNP-NLIMFLVANKVDL 109
           QER+ SL   ++R A   ++++D+TS  SF   + W+ +LQ      N  + L+ NK DL
Sbjct: 94  QERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADL 153

Query: 110 EEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTE 169
            ++R+V   +    A + G+ + ETSA +  NV +    +   + +         ++   
Sbjct: 154 PDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQCVEKTQIPDT 213

Query: 170 SHGG 173
            +GG
Sbjct: 214 VNGG 217

>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 =  197 bits (504), Expect = 2e-65
 Identities = 52/165 (31%), Positives = 83/165 (50%), Gaps = 2/165 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+SL ++FV+GQF D  + TI    FT+++++N       + DTAGQ+ Y      Y
Sbjct: 16  SVGKSSLTIQFVEGQFVDSYDPTIEN-TFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTY 74

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
                  ++VY +TS+ SFE  K    +L    G   + + LV NK DL  +R +  EEG
Sbjct: 75  SIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEG 134

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMK 165
           +  A+    +FLE+SAK      ++F  I     +++ +   G  
Sbjct: 135 KALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMDGACSQGKS 179

>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 =  193 bits (494), Expect = 9e-64
 Identities = 48/164 (29%), Positives = 83/164 (50%), Gaps = 11/164 (6%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEV----------TIKFDIWDTAG 50
            G GKTS++ ++  G+F     +T+G  F  + +                I   +WDTAG
Sbjct: 20  SGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAG 79

Query: 51  QERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQG-NPNLIMFLVANKVDL 109
            ER+ SL   ++R A   ++++D+T+  SF   + W+ +LQ    + N  + L  NK DL
Sbjct: 80  LERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDL 139

Query: 110 EEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           E++R VK EE    A++ G+ + ETSA +  N++     +   +
Sbjct: 140 EDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLI 183

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  190 bits (486), Expect = 5e-63
 Identities = 37/152 (24%), Positives = 63/152 (41%), Gaps = 2/152 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAP-M 60
           G GK++L   F   Q     E       + + + +++  +   ++D   Q          
Sbjct: 12  GVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDH 71

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEE 119
             +   A ++V+ +T   SF +  + +  L+    + +L + LV NK DL   R+V  EE
Sbjct: 72  CLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEE 131

Query: 120 GELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
           G   A       +ETSA   HN  ELF    +
Sbjct: 132 GRHLAGTLSCKHIETSAALHHNTRELFEGAVR 163

>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 =  190 bits (486), Expect = 2e-62
 Identities = 57/182 (31%), Positives = 103/182 (56%), Gaps = 4/182 (2%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L L+F+  +F +  E T     + + + L+   ++ DI DTAGQE Y ++   Y
Sbjct: 24  GVGKSALTLQFMYDEFVEDYEPTKAD-SYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNY 82

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
           +R     + V+ IT M+SF     + +++ R   + N+   LV NK DLE+KR+V  EE 
Sbjct: 83  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA 142

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAK--RLAEVNPSRQTGMKLHTESHGGGRRGF 178
           +  A++  ++++ETSAK+  NV+++F+++ +  R  ++  S++   K   +S     R  
Sbjct: 143 KNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMEDSKEKNGKKKRKSLAKRIRER 202

Query: 179 CC 180
           CC
Sbjct: 203 CC 204

>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 =  188 bits (481), Expect = 5e-62
 Identities = 47/164 (28%), Positives = 83/164 (50%), Gaps = 7/164 (4%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++F++  F    + TI    +T++ S++ +  + DI DTAGQE + ++   Y
Sbjct: 19  GVGKSALTIQFIQSYFVSDYDPTIED-SYTKICSVDGIPARLDILDTAGQEEFGAMREQY 77

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R     ++V+ I    SF    K   ++ R     +  + LV NK DLE +R+V   E 
Sbjct: 78  MRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEA 137

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIA-----KRLAEVNPS 159
             +   + +++ E SAK   NV+E F ++       +  E+ PS
Sbjct: 138 SAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQEQELPPS 181

>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 =  188 bits (481), Expect = 6e-62
 Identities = 50/151 (33%), Positives = 92/151 (60%), Gaps = 2/151 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L L+F+  +F +  E T     + + + L+   ++ DI DTAGQE Y ++   Y
Sbjct: 28  GVGKSALTLQFMYDEFVEDYEPTKAD-SYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNY 86

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           +R     + V+ IT M+SF     + +++ R + + N+   LV NK DLE+KR+V  EE 
Sbjct: 87  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA 146

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
           +  A++  ++++ETSAK+  NV+++F+++ +
Sbjct: 147 KNRAEQWNVNYVETSAKTRANVDKVFFDLMR 177

>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 =  188 bits (479), Expect = 2e-61
 Identities = 37/152 (24%), Positives = 63/152 (41%), Gaps = 2/152 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAP-M 60
           G GK++L   F   Q     E       + + + +++  +   ++D   Q          
Sbjct: 33  GVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDH 92

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEE 119
             +   A ++V+ +T   SF +  + +  L+    + +L + LV NK DL   R+V  EE
Sbjct: 93  CLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEE 152

Query: 120 GELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
           G   A       +ETSA   HN  ELF    +
Sbjct: 153 GRHLAGTLSCKHIETSAALHHNTRELFEGAVR 184

>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 =  187 bits (476), Expect = 5e-61
 Identities = 51/160 (31%), Positives = 79/160 (49%), Gaps = 4/160 (2%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++LV+RF+  +F    + T+ + +     ++++  +  +I DTAGQE        +
Sbjct: 38  GVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQEDTIQREG-H 95

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R     V+VYDIT   SFE        L       N+ + LV NK DL+  R+V  EEG
Sbjct: 96  MRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEG 155

Query: 121 ELYAQENGLSFLETSAKSAH-NVNELFYEIAKRLAEVNPS 159
           E  A E   +F E SA +   N+ E+FYE+ + +      
Sbjct: 156 EKLATELACAFYECSACTGEGNITEIFYELCREVRRRRMV 195

>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 =  185 bits (472), Expect = 8e-61
 Identities = 53/153 (34%), Positives = 88/153 (57%), Gaps = 2/153 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++FV G F +  + TI   F+ + + ++      +I DTAG E++ S+  +Y
Sbjct: 13  GVGKSALTVQFVTGTFIEKYDPTIED-FYRKEIEVDSSPSVLEILDTAGTEQFASMRDLY 71

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
            +     ++VY + +  SF+  K    ++ R      + + LV NKVDLE +R+V + EG
Sbjct: 72  IKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEG 131

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
              A+E G  F+ETSAKS   V+ELF EI +++
Sbjct: 132 RALAEEWGCPFMETSAKSKTMVDELFAEIVRQM 164

>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 =  184 bits (471), Expect = 1e-60
 Identities = 50/151 (33%), Positives = 90/151 (59%), Gaps = 2/151 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L L+F+  +F +  E T     + + + L+   ++ DI DTAGQE Y ++   Y
Sbjct: 14  GVGKSALTLQFMYDEFVEDYEPTKAD-SYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNY 72

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
           +R     + V+ IT M+SF     + +++ R   + N+   LV NK DLE+KR+V  EE 
Sbjct: 73  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA 132

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
           +  A +  ++++ETSAK+  NV+++F+++ +
Sbjct: 133 KNRADQWNVNYVETSAKTRANVDKVFFDLMR 163

>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 =  185 bits (471), Expect = 1e-60
 Identities = 53/152 (34%), Positives = 80/152 (52%), Gaps = 3/152 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SLVLRFVKG F +    T+    + QV+S ++      I DT G  ++ ++  + 
Sbjct: 13  GVGKSSLVLRFVKGTFRESYIPTVED-TYRQVISCDKSICTLQITDTTGSHQFPAMQRLS 71

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR--QGNPNLIMFLVANKVDLEEKRKVKNEE 119
                A ++VY ITS  S E  K   +++        ++ + LV NK D    R+V++ E
Sbjct: 72  ISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSE 131

Query: 120 GELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
            E  A+    +F+ETSAK  HNV ELF E+  
Sbjct: 132 AEALARTWKCAFMETSAKLNHNVKELFQELLN 163

>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 =  184 bits (469), Expect = 2e-60
 Identities = 42/151 (27%), Positives = 68/151 (45%), Gaps = 3/151 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L   F  G     +    G   + + + ++       ++D   Q+    L    
Sbjct: 12  GVGKSALARIFG-GVEDGPEAEAAGH-TYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHC 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
                A V+VY +T   SFE+A +   +L+R +   ++ + LV NK DL   R+V  +EG
Sbjct: 70  MAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEG 129

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
              A      F+ETSA   HNV  LF  + +
Sbjct: 130 RACAVVFDCKFIETSAALHHNVQALFEGVVR 160

>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 =  185 bits (472), Expect = 2e-60
 Identities = 57/182 (31%), Positives = 86/182 (47%), Gaps = 4/182 (2%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SLVLRFVKG F D    TI    + QV+S ++      I DT G  ++ ++  + 
Sbjct: 18  GVGKSSLVLRFVKGTFRDTYIPTIED-TYRQVISCDKSVCTLQITDTTGSHQFPAMQRLS 76

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR--QGNPNLIMFLVANKVDLEEKRKVKNEE 119
                A ++V+ +TS  S E      + + +      ++ + LV NK D  + R+V   E
Sbjct: 77  ISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ-REVDTRE 135

Query: 120 GELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGRRGFC 179
            +  AQE   +F+ETSAK  +NV ELF E+       N S     K   +     R    
Sbjct: 136 AQAVAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNMSLNIDGKRSGKQKRTDRVKGK 195

Query: 180 CS 181
           C+
Sbjct: 196 CT 197

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  191 bits (487), Expect = 4e-59
 Identities = 28/169 (16%), Positives = 59/169 (34%), Gaps = 12/169 (7%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEV--------TIKFDIWDTAGQER 53
             GKTSL+ + +   F   +  T G    T+     +            F  WD  GQE 
Sbjct: 51  MAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEI 110

Query: 54  YHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR 113
            H+    +   ++  +++ D     +      W++ +++ G     + +V NK+D     
Sbjct: 111 MHASHQFFMTRSSVYMLLLDSR---TDSNKHYWLRHIEKYG-GKSPVIVVMNKIDENPSY 166

Query: 114 KVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQT 162
            ++ ++           F   S K+   V  +   +   +   +    T
Sbjct: 167 NIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKSAVLHPDSIYGT 215

>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 =  180 bits (458), Expect = 1e-58
 Identities = 49/153 (32%), Positives = 70/153 (45%), Gaps = 4/153 (2%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM- 60
           G GKTSL   F   Q  D     +G   + + L+++       + DT   E+        
Sbjct: 14  GVGKTSLASLFAGKQERD-LHEQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQE 72

Query: 61  -YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNE 118
              +G +A V+VY I    SFE A +   +L+R     ++ + LV NK DL   R+V  E
Sbjct: 73  SCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVE 132

Query: 119 EGELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
           EG   A      F+ETSA   HNV ELF  + +
Sbjct: 133 EGRACAVVFDCKFIETSATLQHNVAELFEGVVR 165

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score =  178 bits (455), Expect = 5e-58
 Identities = 48/152 (31%), Positives = 82/152 (53%), Gaps = 3/152 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++F +  F D  + TI    + +   ++      D+ DTAGQE + ++   Y
Sbjct: 28  GVGKSALTIQFFQKIFVDDYDPTIED-SYLKHTEIDNQWAILDVLDTAGQEEFSAMREQY 86

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R     ++VY +T   SFE   ++ Q + R     +  M LVANKVDL   RKV  ++G
Sbjct: 87  MRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQG 146

Query: 121 ELYAQENGLSFLETSAKSAH-NVNELFYEIAK 151
           +  A +  + ++ETSAK    NV++ F+++ +
Sbjct: 147 KEMATKYNIPYIETSAKDPPLNVDKTFHDLVR 178

>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 =  177 bits (452), Expect = 1e-57
 Identities = 35/166 (21%), Positives = 69/166 (41%), Gaps = 13/166 (7%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
            +GK+SL+ RF+ G +    E T     + + + ++  T    I + AG          +
Sbjct: 17  RSGKSSLIHRFLTGSYQVL-EKTESE-QYKKEMLVDGQTHLVLIREEAGAPDAK-----F 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR-----QGNPNLIMFLVANKVDLEEKRKVK 116
              A A + V+ +   +SF+   +   +L       +G   L +    +++     R V 
Sbjct: 70  SGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVG 129

Query: 117 NEEG-ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
           +     L A     S+ ET A    NV+ +F E+A+++  +   +Q
Sbjct: 130 DARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRKQQQ 175

>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 =  176 bits (449), Expect = 3e-57
 Identities = 45/151 (29%), Positives = 83/151 (54%), Gaps = 3/151 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++ ++  F D  + TI    + + + ++  T   DI DTAGQE Y ++   Y
Sbjct: 13  GVGKSALTIQLIQNHFVDECDPTIED-SYRKQVVIDGETCLLDILDTAGQEEYSAMRDQY 71

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R     + V+ I +  SFE   ++ ++++R   + ++ M LV NK DL   R V++ + 
Sbjct: 72  MRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA-RTVESRQA 130

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
           +  A+  G+ ++ETSAK+   V + FY + +
Sbjct: 131 QDLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>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 =  177 bits (450), Expect = 4e-57
 Identities = 47/181 (25%), Positives = 86/181 (47%), Gaps = 8/181 (4%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++ ++  F D  + TI    + + + ++  T   DI DTAGQE Y ++   Y
Sbjct: 14  GVGKSALTIQLIQNHFVDEYDPTIED-SYRKQVVIDGETCLLDILDTAGQEEYSAMRDQY 72

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R     + V+ I +  SFE    + ++++R   + ++ M LV NK DL   R V  ++ 
Sbjct: 73  MRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS-RTVDTKQA 131

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESHGGGRRGFCC 180
           +  A+  G+ F+ETSAK+   V++ FY + + + +                   +    C
Sbjct: 132 QDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKEKMSKD-----GKKKKKKSKTKC 186

Query: 181 S 181
            
Sbjct: 187 V 187

>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 =  176 bits (449), Expect = 4e-57
 Identities = 31/174 (17%), Positives = 78/174 (44%), Gaps = 15/174 (8%)

Query: 2   GTGKTSLVLRFVKGQFFDF--QESTIGAAFFTQVLSLN---EVTIKFDIWDTAGQERYHS 56
           G+GKT+L+ + +K +  D   Q +T+G       + +    +  +  ++WD AG+E ++S
Sbjct: 12  GSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYS 71

Query: 57  LAPMYYRGAAAAVVVYDITSMDS-FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV 115
             P +    A  + VYD++   +  +  K W+  ++ + + + ++ LV   +D+ ++++ 
Sbjct: 72  THPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSPVI-LVGTHLDVSDEKQR 130

Query: 116 K---NEEGELYAQENGLSFL-----ETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
           K   ++  +    + G   +       + + +  + +L   I           Q
Sbjct: 131 KACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLNFKIRDQ 184

>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 =  175 bits (447), Expect = 2e-56
 Identities = 48/165 (29%), Positives = 77/165 (46%), Gaps = 7/165 (4%)

Query: 2   GTGKTSLVLRFVKGQF-FDFQESTIGAAFFTQVLSLNEVT---IKFDIWDTAGQERYHSL 57
           G GK++L   F       D     +G   + + L ++  +   I  D+W+  G+  +  L
Sbjct: 47  GVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--L 104

Query: 58  APMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVK 116
                +   A ++VY IT   SFE+A +   +L+R     ++ + LV NK DL   R+V 
Sbjct: 105 HDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVS 164

Query: 117 NEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
             EG   A      F+ETSA   HNV ELF  I +++     S++
Sbjct: 165 VSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRRDSKE 209

>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 =  173 bits (441), Expect = 4e-56
 Identities = 49/152 (32%), Positives = 89/152 (58%), Gaps = 3/152 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++FV+G F +  + TI    + + + ++      +I DTAG E++ ++  +Y
Sbjct: 13  GVGKSALTVQFVQGIFVEKYDPTIED-SYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLY 71

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
            +      +VY IT+  +F   +   +++ R     ++ M LV NK DLE++R V  E+G
Sbjct: 72  MKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQG 131

Query: 121 ELYAQE-NGLSFLETSAKSAHNVNELFYEIAK 151
           +  A++    +FLE+SAKS  NVNE+FY++ +
Sbjct: 132 QNLARQWCNCAFLESSAKSKINVNEIFYDLVR 163

>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 =  172 bits (439), Expect = 2e-55
 Identities = 45/161 (27%), Positives = 83/161 (51%), Gaps = 3/161 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++ ++  F D  + TI    + + + ++  T   DI DTAGQE Y ++   Y
Sbjct: 31  GVGKSALTIQLIQNHFVDEYDPTIED-SYRKQVVIDGETCLLDILDTAGQEEYSAMRDQY 89

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R     + V+ I +  SF     + ++++R + + ++ M LV NK DL   R V  ++ 
Sbjct: 90  MRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQA 148

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
              A+  G+ F+ETSAK+   V + FY + + + +    + 
Sbjct: 149 HELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYRMKKL 189

>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 =  172 bits (439), Expect = 2e-55
 Identities = 48/169 (28%), Positives = 78/169 (46%), Gaps = 7/169 (4%)

Query: 2   GTGKTSLVLRFVKGQF-FDFQESTIGAAFFTQVLSLNEVT---IKFDIWDTAGQERYHSL 57
           G GK++L   F       D     +G   + + L ++  +   I  D+W+  G+  +  L
Sbjct: 16  GVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--L 73

Query: 58  APMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVK 116
                +   A ++VY IT   SFE+A +   +L+R     ++ + LV NK DL   R+V 
Sbjct: 74  HDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVS 133

Query: 117 NEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMK 165
             EG   A      F+ETSA   HNV ELF  I +++     S++   +
Sbjct: 134 VSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRRDSKEKNER 182

>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 =  171 bits (435), Expect = 5e-55
 Identities = 36/154 (23%), Positives = 71/154 (46%), Gaps = 6/154 (3%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++F+  +F    +  +    ++   +++   +   + DTA  +   +    Y
Sbjct: 31  GAGKSALTVKFLTKRFISEYDPNLED-TYSSEETVDHQPVHLRVMDTADLDTPRNC-ERY 88

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ---GNPNLIMFLVANKVDLEEKRKVKNE 118
              A A +VVY + S  SF+ +  +++ L         ++   L+ NK+D+ + R+V   
Sbjct: 89  LNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKA 148

Query: 119 EGELYAQENGLSFLETSAK-SAHNVNELFYEIAK 151
           EG   A   G  F E SA     +V  +F+E  +
Sbjct: 149 EGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVR 182

>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 =  158 bits (401), Expect = 7e-50
 Identities = 31/155 (20%), Positives = 63/155 (40%), Gaps = 11/155 (7%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
            +GK++LV R++ G +   +ES  G   F + + ++  +    I D  G          +
Sbjct: 30  SSGKSALVHRYLTGTYVQ-EESPEGG-RFKKEIVVDGQSYLLLIRDEGGPPELQ-----F 82

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDL--EEKRKVKNE 118
                A V V+ +    SF+    +   L    N + + M LV  +  +     R + + 
Sbjct: 83  AAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDS 142

Query: 119 EGELYAQENGL-SFLETSAKSAHNVNELFYEIAKR 152
                + +    ++ ET A    NV  +F ++A++
Sbjct: 143 RARKLSTDLKRCTYYETCATYGLNVERVFQDVAQK 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 =  133 bits (337), Expect = 5e-40
 Identities = 43/164 (26%), Positives = 73/164 (44%), Gaps = 6/164 (3%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L+L F KG+       T+   F   +           +WDTAGQE Y  L P+ 
Sbjct: 33  AVGKTCLLLAFSKGEIPTAYVPTVFENFSHVM-KYKNEEFILHLWDTAGQEEYDRLRPLS 91

Query: 62  YRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--KRKVKNE 118
           Y  +   ++ + + +  SF+    KW  E+ +         LV  KVDL +     V  +
Sbjct: 92  YADSDVVLLCFAVNNRTSFDNISTKWEPEI-KHYIDTAKTVLVGLKVDLRKDGSDDVTKQ 150

Query: 119 EGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
           EG+   Q+ G ++++E S+ +   +NE+F +    +    P  +
Sbjct: 151 EGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIFSNKPVPK 194

>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 =  127 bits (321), Expect = 2e-37
 Identities = 52/189 (27%), Positives = 89/189 (47%), Gaps = 17/189 (8%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT +++ +   +F      T+   F   V +++   +   +WDTAGQE Y  L P+ 
Sbjct: 19  AVGKTCMLICYTSNKFPTDYIPTVFDNFSANV-AVDGQIVNLGLWDTAGQEDYSRLRPLS 77

Query: 62  YRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEE--------K 112
           YRGA   V+ + + S  S+E    KW+ EL R+  PN+ + LV  K+DL +         
Sbjct: 78  YRGADIFVLAFSLISKASYENVLKKWMPEL-RRFAPNVPIVLVGTKLDLRDDKGYLADHT 136

Query: 113 RKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGMKLHTESH 171
             + + +GE   ++ G  +++E S+K+  NV  +F   A ++    P R+   +      
Sbjct: 137 NVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDT-AIKVVLQPPRRKEVPR----RR 191

Query: 172 GGGRRGFCC 180
              RR  C 
Sbjct: 192 KNHRRSGCS 200

>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 =  125 bits (317), Expect = 3e-37
 Identities = 48/169 (28%), Positives = 80/169 (47%), Gaps = 16/169 (9%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   F   V  +N  T+   +WDTAGQE Y+ L P+ 
Sbjct: 18  AVGKTCLLISYTSNTFPTDYVPTVFDNFSANV-VVNGATVNLGLWDTAGQEDYNRLRPLS 76

Query: 62  YRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRK------ 114
           YRGA   ++ + + S  S+E    KW+ EL +   P + + LV  K+DL + ++      
Sbjct: 77  YRGADVFILAFSLISKASYENVSKKWIPEL-KHYAPGVPIVLVGTKLDLRDDKQFFIDHP 135

Query: 115 ----VKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNP 158
               +   +GE   +  G  +++E S+KS  NV  +F    +    + P
Sbjct: 136 GAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIR--VVLQP 182

>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 =  126 bits (317), Expect = 7e-37
 Identities = 46/164 (28%), Positives = 80/164 (48%), Gaps = 16/164 (9%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKTSL++ F  G F +    T+   +   +  +    +   IWDTAGQ+ Y  L P++
Sbjct: 44  GCGKTSLLMVFADGAFPESYTPTVFERYMVNL-QVKGKPVHLHIWDTAGQDDYDRLRPLF 102

Query: 62  YRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRK------ 114
           Y  A+  ++ +D+TS +SF+    +W  E+       + + +V  K DL + +       
Sbjct: 103 YPDASVLLLCFDVTSPNSFDNIFNRWYPEV-NHFCKKVPIIVVGCKTDLRKDKSLVNKLR 161

Query: 115 ------VKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAK 151
                 V    G+  A+  G +++LE SA+   NV+ +F E A+
Sbjct: 162 RNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAE 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 =  123 bits (310), Expect = 5e-36
 Identities = 43/164 (26%), Positives = 72/164 (43%), Gaps = 16/164 (9%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V  ++   +   +WDTAGQE Y  L P+ 
Sbjct: 40  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANV-MVDGKPVNLGLWDTAGQEDYDRLRPLS 98

Query: 62  YRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRK------ 114
           Y      ++ + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 99  YPQTDVFLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 157

Query: 115 ------VKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAK 151
                 +   +G   A+E G + +LE SA +   +  +F E  +
Sbjct: 158 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIR 201

>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 =  123 bits (310), Expect = 6e-36
 Identities = 49/164 (29%), Positives = 75/164 (45%), Gaps = 16/164 (9%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ F K QF +    T+    +   + ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 35  ACGKTCLLIVFSKDQFPEVYVPTVFE-NYIADIEVDGKQVELALWDTAGQEDYDRLRPLS 93

Query: 62  YRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRK------ 114
           Y      ++ + I S DS E    KW  E+ +   PN+ + LV NK DL +         
Sbjct: 94  YPDTDVILMCFSIDSPDSLENIPEKWTPEV-KHFCPNVPIILVGNKKDLRQDEHTRRELA 152

Query: 115 ------VKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAK 151
                 V++EEG   A       +LE SAK+   V E+F    +
Sbjct: 153 KMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMATR 196

>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 =  121 bits (306), Expect = 2e-35
 Identities = 47/164 (28%), Positives = 75/164 (45%), Gaps = 16/164 (9%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ F K +F +    T+   +   +  ++   ++  +WDTAGQE Y  L P+ 
Sbjct: 35  ACGKTCLLIVFSKDEFPEVYVPTVFENYVADI-EVDGKQVELALWDTAGQEDYDRLRPLS 93

Query: 62  YRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRK------ 114
           Y      ++ + + S DS E    KWV E+ +   PN+ + LVANK DL           
Sbjct: 94  YPDTDVILMCFSVDSPDSLENIPEKWVPEV-KHFCPNVPIILVANKKDLRSDEHVRTELA 152

Query: 115 ------VKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAK 151
                 V+ ++G   A       +LE SAK+   V E+F    +
Sbjct: 153 RMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATR 196

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  121 bits (305), Expect = 4e-35
 Identities = 45/164 (27%), Positives = 71/164 (43%), Gaps = 16/164 (9%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKTSLV+ +    +      T    F   V S++   ++  + DTAGQ+ +  L P+ 
Sbjct: 30  AVGKTSLVVSYTTNGYPTEYIPTAFDNFSAVV-SVDGRPVRLQLCDTAGQDEFDKLRPLC 88

Query: 62  YRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRK------ 114
           Y      ++ + + S  SF+    KWV E+ R   P   + LV  + DL E  K      
Sbjct: 89  YTNTDIFLLCFSVVSPSSFQNVSEKWVPEI-RCHCPKAPIILVGTQSDLREDVKVLIELD 147

Query: 115 ------VKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAK 151
                 V  E  +L A+E    S++E SA +  N+ E+F     
Sbjct: 148 KCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFDAAIV 191

>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 =  117 bits (296), Expect = 5e-34
 Identities = 43/164 (26%), Positives = 73/164 (44%), Gaps = 16/164 (9%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+   +   V  ++   +   +WDTAGQE Y  L P+ 
Sbjct: 15  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANV-MVDGKPVNLGLWDTAGQEDYDRLRPLS 73

Query: 62  YRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRK------ 114
           Y     +++ + + S  SFE  + KW  E+ R   PN  + LV  K+DL + +       
Sbjct: 74  YPQTDVSLICFSLVSPASFENVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKLK 132

Query: 115 ------VKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAK 151
                 +   +G   A+E G + +LE SA +   +  +F E  +
Sbjct: 133 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIR 176

>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 =  116 bits (293), Expect = 2e-33
 Identities = 42/173 (24%), Positives = 78/173 (45%), Gaps = 22/173 (12%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAF--FTQVLSLNEVTIKFDIWDTAGQERYHSLAP 59
             GKT L++ +    F +    T+   F  +   +++        ++DTAGQE Y  L P
Sbjct: 28  AVGKTCLLMSYANDAFPEEYVPTV---FDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRP 84

Query: 60  MYYRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRK---- 114
           + Y      ++ + + +  SF+  K +WV EL ++  PN+   L+  ++DL +  K    
Sbjct: 85  LSYPMTDVFLICFSVVNPASFQNVKEEWVPEL-KEYAPNVPFLLIGTQIDLRDDPKTLAR 143

Query: 115 --------VKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNP 158
                   +  E+G+  A+E G   ++E SA +   +  +F E     A + P
Sbjct: 144 LNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAII--AILTP 194

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B* Length = 184

 Score =  114 bits (286), Expect = 1e-32
 Identities = 40/165 (24%), Positives = 75/165 (45%), Gaps = 17/165 (10%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+L+  F K  F +    T+   +      ++   I+  +WDT+G   Y ++ P+ 
Sbjct: 17  QCGKTALLHVFAKDCFPENYVPTVFENYTASF-EIDTQRIELSLWDTSGSPYYDNVRPLS 75

Query: 62  YRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRK------ 114
           Y  + A ++ +DI+  ++ +    KW  E+ ++  PN  M LV  K DL           
Sbjct: 76  YPDSDAVLICFDISRPETLDSVLKKWKGEI-QEFCPNTKMLLVGCKSDLRTDVSTLVELS 134

Query: 115 ------VKNEEGELYAQENG-LSFLETSAKSAHN-VNELFYEIAK 151
                 V  ++G   A++ G  +++E SA  + N V ++F+    
Sbjct: 135 NHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATL 179

>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 =  111 bits (279), Expect = 3e-31
 Identities = 40/165 (24%), Positives = 75/165 (45%), Gaps = 17/165 (10%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+L+  F K  F +    T+   +      ++   I+  +WDT+G   Y ++ P+ 
Sbjct: 38  QCGKTALLHVFAKDCFPENYVPTVFENYTASF-EIDTQRIELSLWDTSGSPYYDNVRPLS 96

Query: 62  YRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRK------ 114
           Y  + A ++ +DI+  ++ +    KW  E+ ++  PN  M LV  K DL           
Sbjct: 97  YPDSDAVLICFDISRPETLDSVLKKWKGEI-QEFCPNTKMLLVGCKSDLRTDVSTLVELS 155

Query: 115 ------VKNEEGELYAQENG-LSFLETSAKSAHN-VNELFYEIAK 151
                 V  ++G   A++ G  +++E SA  + N V ++F+    
Sbjct: 156 NHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATL 200

>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 =  109 bits (274), Expect = 2e-30
 Identities = 36/165 (21%), Positives = 73/165 (44%), Gaps = 17/165 (10%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+++    K  + +    T+   +   +    E  ++  +WDT+G   Y ++ P+ 
Sbjct: 37  QCGKTAMLQVLAKDCYPETYVPTVFENYTACL-ETEEQRVELSLWDTSGSPYYDNVRPLC 95

Query: 62  YRGAAAAVVVYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDLEEKRK------ 114
           Y  + A ++ +DI+  ++ + A KKW  E+     P+  + L+  K DL           
Sbjct: 96  YSDSDAVLLCFDISRPETVDSALKKWRTEI-LDYCPSTRVLLIGCKTDLRTDLSTLMELS 154

Query: 115 ------VKNEEGELYAQENG-LSFLETSAK-SAHNVNELFYEIAK 151
                 +  E+G   A++ G   +LE SA  S  +++ +F   + 
Sbjct: 155 HQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASM 199

>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 =  105 bits (262), Expect = 3e-28
 Identities = 29/149 (19%), Positives = 58/149 (38%), Gaps = 9/149 (6%)

Query: 11  RFVKGQFFDFQESTIGAAFFTQVLSLNEVT---IKFDIWDTAGQERY--HSLAPMYYRGA 65
            F+  Q F    ST    +  +  +    +   + +   D  G E+       P      
Sbjct: 104 EFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLV 163

Query: 66  AAAVVVYDITSMD--SFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGEL 122
              ++  D++     +F+   K+V  L  Q       + +V  K D   +R +++     
Sbjct: 164 DGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYIRDAHTFA 223

Query: 123 YAQENGLSFLETSAKSAHNVNELFYEIAK 151
            +++N L  +ETSA+S  NV+  F  + +
Sbjct: 224 LSKKN-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 = 92.4 bits (229), Expect = 5e-23
 Identities = 41/165 (24%), Positives = 70/165 (42%), Gaps = 16/165 (9%)

Query: 1   MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
              GKT L++ +    F      T+   +   V  ++   +   +WDTAG E Y  L P+
Sbjct: 164 GAVGKTCLLISYTTNAFPGEYIPTVFDNYSANV-MVDGKPVNLGLWDTAGLEDYDRLRPL 222

Query: 61  YYRGAAAAVVVYDITSMDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRK----- 114
            Y      ++ + + S  SF   + KW  E+ R   PN  + LV  K+DL + +      
Sbjct: 223 SYPQTDVFLICFSLVSPASFHHVRAKWYPEV-RHHCPNTPIILVGTKLDLRDDKDTIEKL 281

Query: 115 -------VKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAK 151
                  +   +G   A+E G + +LE SA +   +  +F E  +
Sbjct: 282 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIR 326

>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 = 73.1 bits (179), Expect = 1e-16
 Identities = 39/171 (22%), Positives = 72/171 (42%), Gaps = 24/171 (14%)

Query: 2   GTGKTSLV-LRFVKGQFFD--FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLA 58
            +GK+S+  + F K    +  F EST       +    N   + F IWD  GQ  +    
Sbjct: 30  RSGKSSIQKVVFHKMSPNETLFLESTNK---IYKDDISNSSFVNFQIWDFPGQMDFFDPT 86

Query: 59  P---MYYRGAAAAVVVYDITS--MDSFERAKKWVQELQRQGNPNLIMFLVANKVDL--EE 111
               M +RG  A + V D     M++  R    V +  +  NP++   +  +KVD   ++
Sbjct: 87  FDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKV-NPDMNFEVFIHKVDGLSDD 145

Query: 112 KR---------KVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +         +  ++  +   ++  LSF  TS    H++ E F ++ ++L
Sbjct: 146 HKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYD-HSIFEAFSKVVQKL 195

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 70.4 bits (172), Expect = 5e-15
 Identities = 32/181 (17%), Positives = 74/181 (40%), Gaps = 19/181 (10%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSL-NEVTIKFDIWDTAGQERY-----H 55
           G+GK+S+    +   +  F    +GA    +   L     +  ++WD  GQ+ +      
Sbjct: 13  GSGKSSM-RSIIFSNYSAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCGGQDVFMENYFT 71

Query: 56  SLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQ--RQGNPNLIMFLVANKVDL--EE 111
                 ++     + V+D+ S +  +  + + + L+  R+ +P+  +F++ +K+DL   +
Sbjct: 72  KQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLD 131

Query: 112 KRKVKNEEGELYAQE-------NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGM 164
           KR+   +       E         L    TS     ++ + + +I   L     + Q+ +
Sbjct: 132 KREELFQIMMKNLSETSSEFGFPNLIGFPTSIWD-ESLYKAWSQIVCSLIPNMSNHQSNL 190

Query: 165 K 165
           K
Sbjct: 191 K 191

>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 = 67.1 bits (164), Expect = 2e-14
 Identities = 30/171 (17%), Positives = 61/171 (35%), Gaps = 19/171 (11%)

Query: 2   GTGKTSLVLRFVKGQFFDFQES-----------TIGAAFFT-QVLSLNEVTIKFDIWDTA 49
            +GKT+  L+++  +  + ++            T+   F    +  +     +F ++   
Sbjct: 24  LSGKTTN-LKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVP 82

Query: 50  GQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKW---VQELQRQG-NPNLIMFLV-A 104
           GQ  Y++   +  RG    V V D         A+      + L   G   + +  ++  
Sbjct: 83  GQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVPIVIQV 142

Query: 105 NKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
           NK DL +   V+     +   E     LE  A     V E   E+++ +  
Sbjct: 143 NKRDLPDALPVE-MVRAVVDPEGKFPVLEAVATEGKGVFETLKEVSRLVLA 192

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 59.7 bits (144), Expect = 3e-11
 Identities = 33/170 (19%), Positives = 64/170 (37%), Gaps = 24/170 (14%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVT--IKFDIWDTAGQERYHSLA- 58
             GK+S+  + V           + +   T   SL   +  I   + +  GQ  Y   + 
Sbjct: 9   RCGKSSI-CKVVFHNMQPLDTLYLES---TSNPSLEHFSTLIDLAVMELPGQLNYFEPSY 64

Query: 59  --PMYYRGAAAAVVVYDITS--MDSFERAKKWVQELQRQGNPNLIMFLVANKVDL--EEK 112
                ++   A V V D     +++       ++    + NP++ + ++ +KVD   E+ 
Sbjct: 65  DSERLFKSVGALVYVIDSQDEYINAITNLAMIIEYAY-KVNPSINIEVLIHKVDGLSEDF 123

Query: 113 R---------KVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +         +   E  EL      +SF  TS    H++ E F  I ++L
Sbjct: 124 KVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIFD-HSIYEAFSRIVQKL 172

>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 = 56.0 bits (136), Expect = 2e-10
 Identities = 34/114 (29%), Positives = 50/114 (43%), Gaps = 17/114 (14%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+ V     GQF +    T+G   F  +  + +  +   +WD  GQ R+ S+   Y R
Sbjct: 34  GKTTFVNVIASGQFNEDMIPTVG---FN-MRKITKGNVTIKLWDIGGQPRFRSMWERYCR 89

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQR-------QGNPNLIMFLVANKVDLE 110
           G +A V + D    +  E +K    EL         QG P L++    NK DL 
Sbjct: 90  GVSAIVYMVDAADQEKIEASK---NELHNLLDKPQLQGIPVLVL---GNKRDLP 137

>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 = 53.0 bits (128), Expect = 3e-09
 Identities = 37/164 (22%), Positives = 59/164 (35%), Gaps = 25/164 (15%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+++ +F           T+G  F  + L       K +IWD  GQ+   S    Y+ 
Sbjct: 30  GKTTILKKFNGEDVDTIS-PTLG--FNIKTLEHR--GFKLNIWDVGGQKSLRSYWRNYFE 84

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQR-------QGNPNLIMFLVANKVDLEEKRKVK 116
                + V D       +  +   +ELQ         G   LI    ANK DL       
Sbjct: 85  STDGLIWVVDSADRQRMQDCQ---RELQSLLVEERLAGATLLIF---ANKQDLPGALSCN 138

Query: 117 --NEEGELYA-QENGLSFLETSAKSAHNVNE----LFYEIAKRL 153
              E  EL + + +       SA +  ++      L  +I+ R+
Sbjct: 139 AIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSRV 182

>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 = 52.6 bits (127), Expect = 3e-09
 Identities = 30/112 (26%), Positives = 47/112 (41%), Gaps = 12/112 (10%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+++ +   G+       TIG  F  + +      I F +WD  GQ++   L   Y++
Sbjct: 12  GKTTILYKLKLGEIVT-TIPTIG--FNVETVEYK--NISFTVWDVGGQDKIRPLWRHYFQ 66

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNL--IMFLV-ANKVDLEE 111
                + V D    +    A+   +EL R      L   + LV ANK DL  
Sbjct: 67  NTQGLIFVVDSNDRERVNEAR---EELMRMLAEDELRDAVLLVFANKQDLPN 115

>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 = 52.6 bits (127), Expect = 3e-09
 Identities = 35/169 (20%), Positives = 66/169 (39%), Gaps = 25/169 (14%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+++ +F   +       TIG     + + +N    +F +WD  GQE   S    YY 
Sbjct: 28  GKTTILYQFSMNEVVHTS-PTIG--SNVEEIVIN--NTRFLMWDIGGQESLRSSWNTYYT 82

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQR-------QGNPNLIMFLVANKVDLEEKRKVK 116
                +VV D T  +     +   +EL +       +    LI    ANK D++E   V 
Sbjct: 83  NTEFVIVVVDSTDRERISVTR---EELYKMLAHEDLRKAGLLIF---ANKQDVKECMTVA 136

Query: 117 --NEEGELYA-QENGLSFLETSAKSAHNVNE----LFYEIAKRLAEVNP 158
             ++  +L + +++        A +   + +    +   +  RL   + 
Sbjct: 137 EISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLKIRLEHHHH 185

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 52.6 bits (127), Expect = 3e-09
 Identities = 37/160 (23%), Positives = 61/160 (38%), Gaps = 19/160 (11%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKTS++ R   G        T+G     + L      I F++WD  GQ         Y+ 
Sbjct: 34  GKTSILYRLHLGDVVTTV-PTVG--VNLETLQYK--NISFEVWDLGGQTGVRPYWRCYFS 88

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNL--IMFLV-ANKVDLEEKRKVK--N 117
              A + V D T  D    AK    EL        L   + L+ ANK DL +        
Sbjct: 89  DTDAVIYVVDSTDRDRMGVAK---HELYALLDEDELRKSLLLIFANKQDLPDAASEAEIA 145

Query: 118 EEGELYA-QENGLSFLETSAKSAHNVNE----LFYEIAKR 152
           E+  + +      + +++S+K+   + E    L   + ++
Sbjct: 146 EQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLVERLREQ 185

>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 = 52.3 bits (126), Expect = 4e-09
 Identities = 42/160 (26%), Positives = 61/160 (38%), Gaps = 19/160 (11%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+++ R   G+    +  TIG  F  + LS     +K ++WD  GQ         YY 
Sbjct: 30  GKTTILYRLQIGEVVTTK-PTIG--FNVETLSYK--NLKLNVWDLGGQTSIRPYWRCYYA 84

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNL--IMFLV-ANKVDLEEKRKVK--N 117
             AA + V D T  D    A    +EL        L     LV ANK D          +
Sbjct: 85  DTAAVIFVVDSTDKDRMSTAS---KELHLMLQEEELQDAALLVFANKQDQPGALSASEVS 141

Query: 118 EEGELYA-QENGLSFLETSAKSAHNVNE----LFYEIAKR 152
           +E  L   ++   S + +SA     + E    L   I + 
Sbjct: 142 KELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE 181

>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 = 51.5 bits (124), Expect = 1e-08
 Identities = 34/163 (20%), Positives = 62/163 (38%), Gaps = 25/163 (15%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+++ +   G+       TIG  F  + +      I F +WD  GQ++   L   Y++
Sbjct: 41  GKTTILYKLKLGEIVTTI-PTIG--FNVETVEYK--NICFTVWDVGGQDKIRPLWRHYFQ 95

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQR-------QGNPNLIMFLVANKVDLEEKRKVK 116
                + V D    +  + +     ELQ+       +    L+    ANK D+     V 
Sbjct: 96  NTQGLIFVVDSNDRERVQESA---DELQKMLQEDELRDAVLLVF---ANKQDMPNAMPVS 149

Query: 117 --NEEGELYA-QENGLSFLETSAKSAHNVNE----LFYEIAKR 152
              ++  L   +        T A     + +    L +E++KR
Sbjct: 150 ELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSHELSKR 192

>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 = 51.1 bits (123), Expect = 1e-08
 Identities = 28/115 (24%), Positives = 51/115 (44%), Gaps = 14/115 (12%)

Query: 4   GKTSLVLRFVKGQFFDFQES-TIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY 62
           GKT+++ +             TIG   F+ +      ++ F ++D +GQ RY +L   YY
Sbjct: 33  GKTTIINKLKPSNAQSQNILPTIG---FS-IEKFKSSSLSFTVFDMSGQGRYRNLWEHYY 88

Query: 63  RGAAAAVVVYDITSMDSFERAKKWVQ------ELQRQGNPNLIMFLVANKVDLEE 111
           +   A + V D +       AK+ +       +++ +  P L     ANK+DL +
Sbjct: 89  KEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFF---ANKMDLRD 140

>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 = 51.0 bits (123), Expect = 1e-08
 Identities = 39/160 (24%), Positives = 59/160 (36%), Gaps = 19/160 (11%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+++ R   G+       TIG   F  V ++    +KF +WD  G          YY 
Sbjct: 19  GKTTILYRLQVGEVVTTI-PTIG---FN-VETVTYKNLKFQVWDLGGLTSIRPYWRCYYS 73

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNL--IMFLV-ANKVDLEEKRKVK--N 117
              A + V D    D    +K    EL        L   + +V ANK D+E+        
Sbjct: 74  NTDAVIYVVDSCDRDRIGISK---SELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMA 130

Query: 118 EEGELYA-QENGLSFLETSAKSAHNVNE----LFYEIAKR 152
               L A ++      +TSA     ++E    L   +  R
Sbjct: 131 NSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR 170

>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 = 51.0 bits (123), Expect = 1e-08
 Identities = 28/114 (24%), Positives = 38/114 (33%), Gaps = 18/114 (15%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+L+ +            T G  F  + +       K ++WD  GQ +       Y+ 
Sbjct: 28  GKTTLLKQLASEDISH-ITPTQG--FNIKSVQSQ--GFKLNVWDIGGQRKIRPYWRSYFE 82

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQR-------QGNPNLIMFLVANKVDLE 110
                + V D      FE      QEL            P LI    ANK DL 
Sbjct: 83  NTDILIYVIDSADRKRFEETG---QELTELLEEEKLSCVPVLIF---ANKQDLL 130

>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 = 51.1 bits (123), Expect = 2e-08
 Identities = 20/112 (17%), Positives = 41/112 (36%), Gaps = 12/112 (10%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+L+      +       T+     ++ L++    + F  +D  G  +   +   Y  
Sbjct: 37  GKTTLLHMLKDDRLGQHV-PTLH--PTSEELTIA--GMTFTTFDLGGHIQARRVWKNYLP 91

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNL--IMFLV-ANKVDLEE 111
                V + D    +    +K   +EL     +  +  +  L+  NK+D  E
Sbjct: 92  AINGIVFLVDCADHERLLESK---EELDSLMTDETIANVPILILGNKIDRPE 140

>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 = 50.3 bits (121), Expect = 2e-08
 Identities = 30/112 (26%), Positives = 50/112 (44%), Gaps = 12/112 (10%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+++ +F   +       TIG     + + +N    +F +WD  GQE   S    YY 
Sbjct: 33  GKTTILYQFSMNEVVH-TSPTIG--SNVEEIVIN--NTRFLMWDIGGQESLRSSWNTYYT 87

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNL--IMFLV-ANKVDLEE 111
                +VV D T  +     +   +EL +   + +L     L+ ANK D++E
Sbjct: 88  NTEFVIVVVDSTDRERISVTR---EELYKMLAHEDLRKAGLLIFANKQDVKE 136

>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 = 49.9 bits (120), Expect = 4e-08
 Identities = 26/114 (22%), Positives = 40/114 (35%), Gaps = 18/114 (15%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GKT+L+      +    Q  T      T    L    IKF  +D  G  +   L   Y+ 
Sbjct: 35  GKTTLLHMLKNDRLATLQ-PTWH---PT-SEELAIGNIKFTTFDLGGHIQARRLWKDYFP 89

Query: 64  GAAAAVVVYDITSMDSFERAKKWVQELQR-------QGNPNLIMFLVANKVDLE 110
                V + D    + F+ A+    EL         +  P +I+    NK+D  
Sbjct: 90  EVNGIVFLVDAADPERFDEAR---VELDALFNIAELKDVPFVIL---GNKIDAP 137

>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 = 50.1 bits (120), Expect = 4e-08
 Identities = 26/115 (22%), Positives = 41/115 (35%), Gaps = 11/115 (9%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY-HSLAPM 60
            +GKT L +R + GQ+ D Q ++I  +        N       + D  G E     L   
Sbjct: 17  DSGKTLLFVRLLTGQYRDTQ-TSITDSSAI-YKVNNNRGNSLTLIDLPGHESLRFQLLDR 74

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQR-----QGNPNLIMFLV-ANKVDL 109
           +   A A V V D  +     +     + L +         N    L+  NK D+
Sbjct: 75  FKSSARAVVFVVDSAAFQREVKDVA--EFLYQVLIDSMALKNSPSLLIACNKQDI 127

>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 = 48.2 bits (115), Expect = 2e-07
 Identities = 18/117 (15%), Positives = 36/117 (30%), Gaps = 15/117 (12%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
            +GKTSL+              +        + + +       + D  G  +       Y
Sbjct: 22  NSGKTSLLTLLTTDSVRPTV-VSQEP-----LSAADYDGSGVTLVDFPGHVKLRYKLSDY 75

Query: 62  YRGAAAAV--VVYDITSMDSFERAKKWVQELQR------QGNPNLIMFLV-ANKVDL 109
            +  A  V  +++ + S    ++     + L            N I  L+  NK +L
Sbjct: 76  LKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSEL 132

>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 = 47.0 bits (112), Expect = 4e-07
 Identities = 18/117 (15%), Positives = 36/117 (30%), Gaps = 15/117 (12%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
            +GKTSL+              +        + + +       + D  G  +       Y
Sbjct: 58  NSGKTSLLTLLTTDSVRPTV-VSQE-----PLSAADYDGSGVTLVDFPGHVKLRYKLSDY 111

Query: 62  YRGAAAAV--VVYDITSMDSFERAKKWVQELQR------QGNPNLIMFLV-ANKVDL 109
            +  A  V  +++ + S    ++     + L            N I  L+  NK +L
Sbjct: 112 LKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSEL 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 = 46.9 bits (112), Expect = 9e-07
 Identities = 19/114 (16%), Positives = 36/114 (31%), Gaps = 11/114 (9%)

Query: 47  DTAGQERYHSLAPMYYRGAAAA-----VVVYDITSMDSFERAKKWVQELQRQGNPNLIMF 101
           DT G +    L  +    A          +  +T           V   +    P     
Sbjct: 89  DTPGLDDVGELGRLRVEKARRVFYRADCGIL-VTDSAPTPYEDDVVNLFKEMEIP---FV 144

Query: 102 LVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
           +V NK+D+  ++  + +   LY        L  SA      +++   I++ L  
Sbjct: 145 VVVNKIDVLGEKAEELKG--LYESRYEAKVLLVSALQKKGFDDIGKTISEILPG 196

>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 = 44.5 bits (105), Expect = 5e-06
 Identities = 20/77 (25%), Positives = 31/77 (40%), Gaps = 13/77 (16%)

Query: 41  IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQR-------Q 93
           I F +WD  GQ++   L   Y++     + V D    +    A+   +EL R       +
Sbjct: 209 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAR---EELMRMLAEDELR 265

Query: 94  GNPNLIMFLVANKVDLE 110
               L+    ANK DL 
Sbjct: 266 DAVLLVF---ANKQDLP 279

>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 = 5e-05
 Identities = 19/90 (21%), Positives = 30/90 (33%), Gaps = 8/90 (8%)

Query: 69  VVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG 128
            VV+ +          + V    +     + + LV NK+D       K  E  + A    
Sbjct: 89  AVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDA-----AKYPEEAMKAYHEL 143

Query: 129 LSFLET---SAKSAHNVNELFYEIAKRLAE 155
           L   E    SA     V EL  ++   + E
Sbjct: 144 LPEAEPRMLSALDERQVAELKADLLALMPE 173

>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 Length = 416

 Score = 41.4 bits (98), Expect = 6e-05
 Identities = 21/91 (23%), Positives = 35/91 (38%), Gaps = 7/91 (7%)

Query: 71  VYDITSMDSFERAKKWVQELQRQGNPNLI---MFLVANKVDLEEKRKVKNEEGELYAQEN 127
           V D    +  +  +   +E+    +P L+     +  NKVDL E+  VK     L     
Sbjct: 242 VLDAAD-EPLKTLETLRKEV-GAYDPALLRRPSLVALNKVDLLEEEAVKALADAL--ARE 297

Query: 128 GLSFLETSAKSAHNVNELFYEIAKRLAEVNP 158
           GL+ L  SA +   +  L   +   +    P
Sbjct: 298 GLAVLPVSALTGAGLPALKEALHALVRSTPP 328

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii} Length = 357

 Score = 40.6 bits (95), Expect = 1e-04
 Identities = 16/61 (26%), Positives = 32/61 (52%), Gaps = 2/61 (3%)

Query: 96  PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
            +L   +V NK+D+ ++  +K  E  +  +E GL+ ++ SA     ++ +  EI K L  
Sbjct: 279 KDLPFLVVINKIDVADEENIKRLEKFV--KEKGLNPIKISALKGTGIDLVKEEIIKTLRP 336

Query: 156 V 156
           +
Sbjct: 337 L 337

>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 = 39.8 bits (94), Expect = 2e-04
 Identities = 12/99 (12%), Positives = 31/99 (31%), Gaps = 5/99 (5%)

Query: 65  AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYA 124
           A   + + D+ +    +   +  +          +   VANK+D        +      A
Sbjct: 313 ADLILYLLDLGTERLDDELTEIRELKAAHPAAKFL--TVANKLDRAAN---ADALIRAIA 367

Query: 125 QENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQTG 163
              G   +  SA +   ++ L   +   +  ++   +  
Sbjct: 368 DGTGTEVIGISALNGDGIDTLKQHMGDLVKNLDKLHEAS 406

>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 = 39.0 bits (92), Expect = 3e-04
 Identities = 18/92 (19%), Positives = 37/92 (40%), Gaps = 9/92 (9%)

Query: 69  VVVYDITSMDSFERAKKWV--QELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE 126
           V+++ I + + +    + +    ++    P   + +V NK+D     K      +   ++
Sbjct: 95  VILFMIDATEGWRPRDEEIYQNFIKPLNKP---VIVVINKIDKIGPAKNVLPLIDEIHKK 151

Query: 127 NGLSFLE---TSAKSAHNVNELFYEIAKRLAE 155
           +     E    SA    N++EL   I K L E
Sbjct: 152 HP-ELTEIVPISALKGANLDELVKTILKYLPE 182

>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 = 39.5 bits (91), Expect = 3e-04
 Identities = 31/199 (15%), Positives = 58/199 (29%), Gaps = 52/199 (26%)

Query: 1   M-GTGKTSL---VLRFVKGQ-FFDFQES--TIG------------AAFFTQV------LS 35
           + G+GKT +   V    K Q   DF+     +                  Q+       S
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217

Query: 36  LNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVV---VYDITSMDSFE-RAKKWVQELQ 91
            +   IK  I     + R    +  Y       +V   V +  + ++F    K  +    
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYEN---CLLVLLNVQNAKAWNAFNLSCKILL--TT 272

Query: 92  RQGNPNLIMFLVANK---VDLEEKRKV--KNEEGELYAQENGLSFLETSAKS----AHNV 142
           R     +  FL A     + L+        +E   L  +     +L+   +         
Sbjct: 273 R--FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK-----YLDCRPQDLPREVLTT 325

Query: 143 NELFYE-IAKRLAEVNPSR 160
           N      IA+ + +   + 
Sbjct: 326 NPRRLSIIAESIRD-GLAT 343

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	181
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	100.0
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	100.0
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	100.0
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	100.0
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	100.0
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	100.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	100.0
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	100.0
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	100.0
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	100.0
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	100.0
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	100.0
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	100.0
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	100.0
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	100.0
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	100.0
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	100.0
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	100.0
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	100.0
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	100.0
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	100.0
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	100.0
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	100.0
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	100.0
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	100.0
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	100.0
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	100.0
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	100.0
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	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
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	100.0
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	100.0
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	100.0
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	100.0
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	100.0
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	100.0
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	100.0
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	100.0
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	100.0
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	100.0
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	100.0
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	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
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	100.0
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	100.0
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	100.0
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	100.0
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	100.0
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	100.0
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	100.0
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	100.0
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	100.0
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	100.0
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	100.0
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	100.0
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	100.0
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	100.0
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	100.0
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	100.0
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	100.0
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	100.0
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	100.0
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	100.0
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	100.0
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	100.0
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	100.0
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	100.0
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	100.0
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	100.0
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	100.0
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	100.0
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	100.0
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	100.0
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.98
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.98
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.98
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.98
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.97
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.97
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.97
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.97
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.97
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.97
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.97
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.97
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.97
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.97
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.97
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.97
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.97
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.97
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.97
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.97
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.97
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.96
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.93
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.96
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.95
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.95
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.95
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.95
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.95
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.95
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.94
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.94
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.94
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.94
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.94
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.94
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.94
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.94
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.93
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.93
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.93
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.93
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.93
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.92
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.91
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.91
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.91
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.9
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.9
1nrj_B	218	SR-beta, signal recognition particle receptor beta	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
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.9
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.89
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.88
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.88
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.87
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.87
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.87
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.87
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.87
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.87
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.87
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.87
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.86
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.86
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.86
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.86
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.86
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.86
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.85
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.85
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.85
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.85
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.85
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.84
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.84
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.84
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.84
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.84
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.84
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.84
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.84
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.83
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.83
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.83
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.83
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.83
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.83
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.82
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.82
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.82
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.8
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.8
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.8
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.79
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.79
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.78
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.78
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.78
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.77
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.73
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.73
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.73
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.72
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.72
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.72
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.71
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.7
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.7
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.69
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.69
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.68
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.67
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.67
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.63
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.59
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.59
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.58
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.58
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.58
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.56
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.55
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.54
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.52
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.5
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.48
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.48
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.47
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.47
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.4
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.36
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.36
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.3
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.18
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.16
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	99.15
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	99.05
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.01
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.74
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.72
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.69
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.64
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.48
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.42
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.4
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.29
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.17
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.14
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.13
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.06
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.94
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.82
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	97.69
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	97.63
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.45
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	97.31
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.05
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	96.77
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	96.4
2xxa_A	433	Signal recognition particle protein; protein trans	95.97
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	95.8
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	95.69
3cwq_A	209	Para family chromosome partitioning protein; alpha	95.65
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	95.6
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.52
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.51
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.36
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	95.29
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.09
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.06
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.06
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.02
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	94.99
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	94.98
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	94.9
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.89
3end_A	307	Light-independent protochlorophyllide reductase ir	94.84
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	94.73
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	94.73
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	94.62
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	94.52
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	94.48
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	94.48
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	94.45
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.44
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	94.43
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.4
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.36
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.33
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	94.32
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	94.32
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	94.31
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	94.3
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	94.29
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	94.28
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	94.27
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	94.19
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	94.15
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	94.14
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	94.11
1sgw_A	214	Putative ABC transporter; structural genomics, P p	94.09
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.07
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	94.05
1b0u_A	262	Histidine permease; ABC transporter, transport pro	94.02
1g6h_A	257	High-affinity branched-chain amino acid transport	93.99
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	93.98
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	93.91
4a74_A	231	DNA repair and recombination protein RADA; hydrola	93.9
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.9
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.88
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	93.87
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.85
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	93.84
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.84
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.83
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.82
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	93.82
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.8
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.77
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	93.76
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	93.76
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	93.75
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.71
3co5_A	143	Putative two-component system transcriptional RES	93.7
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	93.7
3uc9_A	233	Increased recombination centers protein 6; rossman	93.7
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	93.69
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	93.69
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	93.67
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	93.63
2ghi_A	260	Transport protein; multidrug resistance protein, M	93.63
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	93.63
2eyu_A	261	Twitching motility protein PILT; pilus retraction	93.61
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	93.6
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	93.55
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	93.51
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	93.5
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	93.39
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	93.39
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	93.35
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	93.32
2chg_A	226	Replication factor C small subunit; DNA-binding pr	93.3
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	93.29
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	93.28
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	93.27
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.19
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	93.15
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	93.12
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	93.1
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	93.08
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	93.07
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	93.05
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	93.03
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	93.01
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.0
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	93.0
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	92.98
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	92.95
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	92.9
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	92.88
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	92.86
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	92.85
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	92.84
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	92.81
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	92.8
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	92.78
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	92.76
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	92.76
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	92.75
1via_A	175	Shikimate kinase; structural genomics, transferase	92.74
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	92.69
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	92.67
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	92.64
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	92.6
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	92.58
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	92.57
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	92.57
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	92.56
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	92.52
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	92.5
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	92.49
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	92.41
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	92.4
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	92.39
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	92.37
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	92.34
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	92.34
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	92.29
2vli_A	183	Antibiotic resistance protein; transferase, tunica	92.28
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	92.27
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	92.27
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	92.26
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	92.25
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	92.17
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	92.17
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	92.17
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	92.16
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	92.13
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	92.12
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	92.11
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	92.06
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	92.03
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	91.99
2cvh_A	220	DNA repair and recombination protein RADB; filamen	91.96
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	91.94
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	91.94
2ewv_A	372	Twitching motility protein PILT; pilus retraction	91.92
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	91.92
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	91.91
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	91.91
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	91.89
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	91.88
3kta_A	182	Chromosome segregation protein SMC; structural mai	91.8
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	91.75
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	91.74
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	91.73
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	91.72
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	91.71
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	91.68
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	91.66
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	91.66
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	91.6
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	91.59
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	91.58
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	91.58
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	91.57
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	91.51
1p9r_A	418	General secretion pathway protein E; bacterial typ	91.51
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	91.49
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	91.48
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	91.38
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	91.16
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	91.06
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	91.01
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	90.9
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	90.87
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	90.87
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	90.85
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	90.84
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	90.84
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	90.82
3bos_A	242	Putative DNA replication factor; P-loop containing	90.82
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	90.65
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	90.61
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	90.58
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	90.53
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	90.52
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	90.44
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	90.44
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	90.33
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	90.26
2og2_A	359	Putative signal recognition particle receptor; nuc	90.24
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	90.19
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	90.05
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	89.68
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	89.66
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	89.66
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	89.52
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	89.51
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	89.48
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	89.43
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	89.39
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	89.37
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	89.33
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	89.26
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	89.16
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	89.1
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	89.04
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	88.96
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	88.83
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	88.82
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	88.71
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	88.68
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	88.64
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	88.6
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	88.53
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	88.47
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	88.37
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	88.27
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	88.16
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	88.08
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	88.06
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	88.02
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	88.01
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	87.91
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	87.89
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	87.87
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	87.8
1tue_A	212	Replication protein E1; helicase, replication, E1E	87.79
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	87.69
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	87.61
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	87.59
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	87.38
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	87.34
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	87.33
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	87.25
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	87.2
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	87.19
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	87.14
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	87.12
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	87.1
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	87.08
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	87.07
2fna_A	357	Conserved hypothetical protein; structural genomic	87.03
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	87.02
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	86.91
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	86.89
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	86.76
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	86.74
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	86.72
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	86.66
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	86.61
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	86.5
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	86.43
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	86.33
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	86.33
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	86.3
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	86.19
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	86.18
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	85.99
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	85.97
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	85.96
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	85.92

>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=2.9e-44  Score=252.39  Aligned_cols=181  Identities=40%  Similarity=0.685  Sum_probs=138.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+.+.+...+.||+|.++....+..++..+++.||||+|++.|..+++.++++++++++|||++++++|
T Consensus        22 ~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~ilv~di~~~~Sf  101 (216)
T 4dkx_A           22 QSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITNVNSF  101 (216)
T ss_dssp             TTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEEEEEeecchhHHH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCCCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSR  160 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~~  160 (181)
                      +.+..|+..+.....++.|++|||||+|+.+.+++..+++..++++++++|+++||++|+||+++|+.|++.+.......
T Consensus       102 ~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAktg~nV~e~F~~i~~~i~~~~~~~  181 (216)
T 4dkx_A          102 QQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQ  181 (216)
T ss_dssp             HTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHHHHHHC-------
T ss_pred             HHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCCCCcCHHHHHHHHHHHHHhhhccc
Confidence            99999999998877788999999999999988999999999999999999999999999999999999999887654332


Q ss_pred             c------cccccccccCCCCCCCCCCC
Q 030225          161 Q------TGMKLHTESHGGGRRGFCCS  181 (181)
Q Consensus       161 ~------~~~~~~~~~~~~~~~~~cc~  181 (181)
                      .      ..+......+..+.+++|||
T Consensus       182 ~~~~~~~~~~~~~~~~~~~~~~~~C~C  208 (216)
T 4dkx_A          182 DRSREDMIDIKLEKPQEQPVSEGGCSC  208 (216)
T ss_dssp             ---------------------------
T ss_pred             ccccccccccccCCCCCCCCCCCCCce
Confidence            2      12223333333444446776

>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=3.2e-37  Score=215.43  Aligned_cols=158  Identities=39%  Similarity=0.697  Sum_probs=147.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        17 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~vilv~d~~~~~s~   96 (206)
T 2bcg_Y           17 SGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESF   96 (206)
T ss_dssp             TTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCEEEEEEECcCHHHH
Confidence            68999999999999999888889999999888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+..|+..+......+.|+++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|++|.+.+.+...
T Consensus        97 ~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~~  174 (206)
T 2bcg_Y           97 NGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMS  174 (206)
T ss_dssp             HHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            999999999988766789999999999998777888888899999999999999999999999999999999987654

>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-36  Score=211.74  Aligned_cols=180  Identities=33%  Similarity=0.599  Sum_probs=142.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        17 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   96 (207)
T 1vg8_A           17 SGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTF   96 (207)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcEEEEEEECCCHHHH
Confidence            68999999999999999888889999998888888898889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC----CCceEEEEEeCCCCcccccCCHHHHHHHHH-HcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGN----PNLIMFLVANKVDLEEKRKVKNEEGELYAQ-ENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~----~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ..+..|+..+.....    .+.|+++|+||+|+. .+.+..+++..++. ..+++++++||++|.|++++|++|.+.+.+
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  175 (207)
T 1vg8_A           97 KTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE-NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALK  175 (207)
T ss_dssp             HTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSS-CCCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccccCCCCcEEEEEECCCCc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            999999998876532    478999999999997 45667777888877 567899999999999999999999999887


Q ss_pred             hCCCC------ccccccccccCCCCCCCCCCC
Q 030225          156 VNPSR------QTGMKLHTESHGGGRRGFCCS  181 (181)
Q Consensus       156 ~~~~~------~~~~~~~~~~~~~~~~~~cc~  181 (181)
                      .....      ...+.........+++++|||
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~c  207 (207)
T 1vg8_A          176 QETEVELYNEFPEPIKLDKNERAKASAESCSC  207 (207)
T ss_dssp             HHHHHHHHHHSCCCC-----------------
T ss_pred             hccccccccCCCccccCCcccccccCCCCCCC
Confidence            65321      223444432333355558887

>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=7e-36  Score=211.14  Aligned_cols=159  Identities=42%  Similarity=0.669  Sum_probs=137.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++.+|++|+|||++++.++
T Consensus        22 ~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vilV~D~~~~~s~  101 (223)
T 3cpj_B           22 SGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSY  101 (223)
T ss_dssp             TTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCEEEEEEC-CCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCCEEEEEEeCCCHHHH
Confidence            68999999999999999888889999988888888999889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS  159 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~  159 (181)
                      +.+..|+..+......+.|+++|+||+|+...+++..+++..+++.++++++++||+++.|++++|++|++.+.++...
T Consensus       102 ~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~~  180 (223)
T 3cpj_B          102 ENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSK  180 (223)
T ss_dssp             HHHHHHHHHHHHHCC--CEEEEEECCGGGGGGCCSCHHHHHHHHHHTTCEEEECCCC-CCCHHHHHHHHHHHHTTCC--
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhhh
Confidence            9999999999887667899999999999987778888889999999999999999999999999999999998876544

>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=2.7e-35  Score=205.39  Aligned_cols=155  Identities=32%  Similarity=0.566  Sum_probs=140.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++..+ ...+.+++..+.+.+||+||++.+..++..+++++|++++|||+++++++
T Consensus        23 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~  101 (206)
T 2bov_A           23 GGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESF  101 (206)
T ss_dssp             TTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCEEEEEEECCCHHHH
Confidence            68999999999999998888888887665 35567888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC-CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ..+..|+..+..... .+.|+++|+||+|+.+.+++..+++..++..++++++++||++|.|++++|++|++.+.++
T Consensus       102 ~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~  178 (206)
T 2bov_A          102 AATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRAR  178 (206)
T ss_dssp             HHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHHc
Confidence            999999999887643 5789999999999988778888899999999999999999999999999999999998775

>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=4.1e-35  Score=204.15  Aligned_cols=158  Identities=37%  Similarity=0.631  Sum_probs=137.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.+|++.++....+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        38 ~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~  117 (201)
T 2hup_A           38 ASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSF  117 (201)
T ss_dssp             TTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTCSEEEEEEETTBHHHH
T ss_pred             CCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCCHHHH
Confidence            68999999999999998888889999888888888999889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+..|+..+......+.|+++|+||+|+.+.+.+..+++..+++..++ +++++||++++|++++|++|++.+.+++.
T Consensus       118 ~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~~  196 (201)
T 2hup_A          118 LSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIMRHG  196 (201)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhcCCCCCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeCCCCCCHHHHHHHHHHHHHHhcc
Confidence            9999999999887667899999999999987778888899999999999 99999999999999999999999987654

>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=6.1e-35  Score=203.33  Aligned_cols=157  Identities=41%  Similarity=0.710  Sum_probs=146.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        35 ~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~  114 (201)
T 2ew1_A           35 AGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESF  114 (201)
T ss_dssp             TTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHH
Confidence            69999999999999999888889999999888889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +.+..|+..+......+.|+++|+||+|+.+.+++..+++..+++..+++++++||++|.|++++|++|++.+.++.
T Consensus       115 ~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~  191 (201)
T 2ew1_A          115 RCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISEA  191 (201)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            99999999998876678999999999999877788888889999999999999999999999999999999988754

>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=1.4e-34  Score=200.31  Aligned_cols=161  Identities=40%  Similarity=0.676  Sum_probs=148.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|++..+...+.++++.++....+..++..+.+.+||+||++.+..++..+++.+|++|+|||++++.++
T Consensus        25 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  104 (196)
T 3tkl_A           25 SGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESF  104 (196)
T ss_dssp             TTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCCEEEEEEECcCHHHH
Confidence            69999999999999999988889999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCCCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSR  160 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~~  160 (181)
                      +.+..|+..+......+.|+++++||+|+...+.+...++..++..++++++++||+++.|++++|++|.+.+.++..+.
T Consensus       105 ~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~~~~  184 (196)
T 3tkl_A          105 NNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPG  184 (196)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEEECTTTCTTHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHhcCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHHHHHHHHHHHHHhccc
Confidence            99999999998877678999999999999888888888999999999999999999999999999999999999887654


Q ss_pred             c
Q 030225          161 Q  161 (181)
Q Consensus       161 ~  161 (181)
                      .
T Consensus       185 ~  185 (196)
T 3tkl_A          185 A  185 (196)
T ss_dssp             -
T ss_pred             c
Confidence            3

>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=1.5e-34  Score=199.74  Aligned_cols=157  Identities=43%  Similarity=0.766  Sum_probs=141.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++|+|||+++++++
T Consensus        30 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~  109 (191)
T 2a5j_A           30 TGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETF  109 (191)
T ss_dssp             TTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHhccCCEEEEEEECCCHHHH
Confidence            68999999999999999888888999888888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +.+..|+..+......+.|+++++||+|+.+.+.+..+++..+++.++++++++||+++.|++++|++|++.+.++.
T Consensus       110 ~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  186 (191)
T 2a5j_A          110 NHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKI  186 (191)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCEEEEEECcccCCccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            99999999998876678999999999999877788888899999999999999999999999999999999887653

>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=1e-34  Score=198.50  Aligned_cols=157  Identities=70%  Similarity=1.115  Sum_probs=144.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        21 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  100 (181)
T 2efe_B           21 VGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASF  100 (181)
T ss_dssp             TTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCCEEEEEEECCCHHHH
Confidence            68999999999999999888889999988888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +.+..|+..+.....++.|+++++||+|+.+.+++..+++..+++.++++++++||+++.|++++|++|.+.+.+.+
T Consensus       101 ~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  177 (181)
T 2efe_B          101 ERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQ  177 (181)
T ss_dssp             HHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCSSSCTTHHHHHHHHHHTCC---
T ss_pred             HHHHHHHHHHHHhcCCCCcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            99999999998876678999999999999877788888899999999999999999999999999999998776554

>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=3.3e-35  Score=201.46  Aligned_cols=157  Identities=37%  Similarity=0.696  Sum_probs=116.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        17 ~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   96 (183)
T 2fu5_C           17 SGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSF   96 (183)
T ss_dssp             CCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEEEEEEECcCHHHH
Confidence            69999999999999988888889999888888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +.+..|+..+......+.|+++++||+|+.+.+.+..+++..+++.++++++++||+++.|++++|++|.+.+.++.
T Consensus        97 ~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~i~~~~  173 (183)
T 2fu5_C           97 DNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKM  173 (183)
T ss_dssp             HHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            99999999998876678999999999999877788888899999999999999999999999999999999887753

>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=2.4e-34  Score=198.27  Aligned_cols=156  Identities=36%  Similarity=0.631  Sum_probs=145.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|++..+...+.++++.++....+..++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        31 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~  110 (189)
T 2gf9_A           31 SSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESF  110 (189)
T ss_dssp             TTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhccCCCEEEEEEECCCHHHH
Confidence            68999999999999999888889999888888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+..+......+.|+++|+||+|+.+.+.+..+++..+++.++++++++||++|.|++++|++|.+.+.++
T Consensus       111 ~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~  186 (189)
T 2gf9_A          111 AAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVICEK  186 (189)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            9999999999887667899999999999988778888888999999999999999999999999999999988765

>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=1.8e-34  Score=196.86  Aligned_cols=155  Identities=43%  Similarity=0.757  Sum_probs=143.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+.+++..+.+.+||+||++.+...+..+++++|++|+|||++++.++
T Consensus        24 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  103 (179)
T 1z0f_A           24 MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTY  103 (179)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCCEEEEEEeCcCHHHH
Confidence            68999999999999999888889999888888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+......+.|+++++||+|+.+.+.+..+++..+++.++++++++||+++.|++++|++|++.+.+
T Consensus       104 ~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  178 (179)
T 1z0f_A          104 NHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ  178 (179)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            999999999988766789999999999998777888888999999999999999999999999999999988754

>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=1.6e-34  Score=195.46  Aligned_cols=154  Identities=65%  Similarity=1.033  Sum_probs=142.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        15 ~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   94 (170)
T 1r2q_A           15 SAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESF   94 (170)
T ss_dssp             TTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEEEEEEECCCHHHH
Confidence            68999999999999998888889999988888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+.....++.|+++++||+|+.+.+.+..+++..+++..+++++++||++|.|++++|++|.+.+.
T Consensus        95 ~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~i~~~~~  168 (170)
T 1r2q_A           95 ARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP  168 (170)
T ss_dssp             HHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHhcCCCCcEEEEEECccCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            99999999998876678999999999999877778888889999999999999999999999999999987653

>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=1.4e-34  Score=195.96  Aligned_cols=155  Identities=44%  Similarity=0.775  Sum_probs=136.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        15 ~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   94 (170)
T 1z08_A           15 GCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSF   94 (170)
T ss_dssp             TTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEEEEEEECcCHHHH
Confidence            69999999999999998888889999888888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+......+.|+++++||+|+.+.+.+..+++..+++..+++++++||+++.|++++|++|.+.+.+
T Consensus        95 ~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  169 (170)
T 1z08_A           95 QKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE  169 (170)
T ss_dssp             HHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhcCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHhh
Confidence            999999999877655678999999999998877888888999999999999999999999999999999998754

>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=2.6e-34  Score=197.42  Aligned_cols=158  Identities=39%  Similarity=0.672  Sum_probs=146.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|++..+...+.++++.++....+..++..+.+.+||+||++.+...+..+++++|++|+|||++++.++
T Consensus        19 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   98 (186)
T 2bme_A           19 AGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETY   98 (186)
T ss_dssp             TTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCEEEEEEECcCHHHH
Confidence            68999999999999999888889999888888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+..|+..+......+.|+++++||+|+...+.+...++..+++..+++++++||+++.|++++|++|++.+.++..
T Consensus        99 ~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~  176 (186)
T 2bme_A           99 NALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIE  176 (186)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHHhh
Confidence            999999999887766789999999999998777888888899999999999999999999999999999999887643

>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=1.9e-34  Score=195.10  Aligned_cols=153  Identities=54%  Similarity=0.885  Sum_probs=141.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        12 ~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   91 (170)
T 1ek0_A           12 AAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSF   91 (170)
T ss_dssp             TTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEEEEecCChHHH
Confidence            68999999999999998888889999998888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCccc---ccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEK---RKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~---~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +.+..|+..+......+.|+++++||+|+...   +++..+++..+++.++++++++||+++.|++++|++|.+.+
T Consensus        92 ~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i  167 (170)
T 1ek0_A           92 IKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             HHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHhcCCCCcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            99999999998876678999999999999765   67778888889999999999999999999999999998755

>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=4.1e-35  Score=202.53  Aligned_cols=158  Identities=35%  Similarity=0.626  Sum_probs=147.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+..++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        32 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  111 (191)
T 3dz8_A           32 SSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESF  111 (191)
T ss_dssp             TTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTCCEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHccCCEEEEEEECcCHHHH
Confidence            68999999999999998888889999899888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+..|+..+......+.|+++|+||+|+.+.+.+..+++..+++.++++++++||++|.|++++|++|++.+.++.+
T Consensus       112 ~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~  189 (191)
T 3dz8_A          112 NAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKMS  189 (191)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence            999999999988766789999999999998888888899999999999999999999999999999999999988754

>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=5.3e-34  Score=192.95  Aligned_cols=154  Identities=46%  Similarity=0.790  Sum_probs=143.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+.+++..+.+.+||+||.+.+..++..+++++|++++|||++++.++
T Consensus        15 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   94 (170)
T 1z0j_A           15 TGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETF   94 (170)
T ss_dssp             TTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEEEEEEECcCHHHH
Confidence            68999999999999998888889999998888889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+.....+..|+++++||+|+.+.+++..++...+++..+++++++||+++.|++++|++|.+.+.
T Consensus        95 ~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~i~~~i~  168 (170)
T 1z0j_A           95 STLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIP  168 (170)
T ss_dssp             HHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHhCCCCCcEEEEEECCccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHHh
Confidence            99999999998876788999999999999887888888899999999999999999999999999999988653

>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=2.4e-34  Score=200.11  Aligned_cols=158  Identities=41%  Similarity=0.685  Sum_probs=135.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        34 ~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  113 (200)
T 2o52_A           34 AGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETY  113 (200)
T ss_dssp             TTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccCCEEEEEEECcCHHHH
Confidence            68999999999999998888889999888888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+..|+..+......+.|+++|+||+|+.+.+.+...++..+++..+++++++||++|.|++++|++|++.+.++..
T Consensus       114 ~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~~  191 (200)
T 2o52_A          114 NSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKID  191 (200)
T ss_dssp             HTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            999999999988766789999999999998777888888899999999999999999999999999999999887643

>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=3.6e-34  Score=193.81  Aligned_cols=156  Identities=40%  Similarity=0.724  Sum_probs=136.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+..++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        12 ~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   91 (170)
T 1g16_A           12 SGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTF   91 (170)
T ss_dssp             TTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEEEEECCCHHHH
Confidence            69999999999999998888889999888888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +.+..|+..+......+.|+++++||+|+ ..+.+..+++..+++.++++++++||++|.|++++|++|.+.+.++.
T Consensus        92 ~~~~~~~~~i~~~~~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~  167 (170)
T 1g16_A           92 TNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI  167 (170)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECTTC-TTCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhcCCCCcEEEEEECccC-CcCccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            99999999998876678999999999999 44567778888899999999999999999999999999999987653

>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=3.8e-34  Score=195.83  Aligned_cols=158  Identities=32%  Similarity=0.481  Sum_probs=141.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.++++..+ ...+..++..+.+.+||+||++.+..++..+++++|++++|||+++++++
T Consensus        15 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   93 (181)
T 3t5g_A           15 RSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSF   93 (181)
T ss_dssp             TTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECCCHHHH
Confidence            69999999999999999888889998877 66778899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCCC
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS  159 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~  159 (181)
                      +.+..|+..+.... ..+.|+++|+||+|+.+.+.+..+++..+++.++++++++||+++.|++++|++|++.+.+.+.+
T Consensus        94 ~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~~  173 (181)
T 3t5g_A           94 EVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMDGA  173 (181)
T ss_dssp             HHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCTTSHHHHHHHHHHHHHHHHTC---
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEEecCCCCCHHHHHHHHHHHHHHhcCC
Confidence            99999999887653 35789999999999988888999999999999999999999999999999999999999887653

>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=5.4e-34  Score=198.55  Aligned_cols=156  Identities=36%  Similarity=0.622  Sum_probs=145.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|++..+...+.++++.++....+..++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        17 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~   96 (203)
T 1zbd_A           17 SSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEESF   96 (203)
T ss_dssp             TTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCEEEEEEECcCHHHH
Confidence            68999999999999999888889999988888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+..+......+.|+++|+||+|+.+.+.+..+++..+++.++++++++||++|.|++++|++|.+.+.++
T Consensus        97 ~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  172 (203)
T 1zbd_A           97 NAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEK  172 (203)
T ss_dssp             HHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSCCSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCEEEEEECcccCcccccCHHHHHHHHHHCCCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            9999999999887667899999999999987778888888999999999999999999999999999999988765

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=100.00  E-value=8.6e-34  Score=193.75  Aligned_cols=157  Identities=38%  Similarity=0.654  Sum_probs=143.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+..++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        18 ~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   97 (181)
T 3tw8_B           18 SGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESF   97 (181)
T ss_dssp             TTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhccCCEEEEEEECCCHHHH
Confidence            69999999999999998888889999999888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      ..+..|+..+.... ++.|+++|+||+|+.+.+.+...++..++...+++++++||++|.|++++|++|.+.+.+.+.
T Consensus        98 ~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~  174 (181)
T 3tw8_B           98 VNVKRWLHEINQNC-DDVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKK  174 (181)
T ss_dssp             HHHHHHHHHHHHHC-TTSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCCEEEEEECCCCchhcccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHHhh
Confidence            99999999997764 689999999999998888888888999999999999999999999999999999998877643

>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=3.4e-34  Score=198.12  Aligned_cols=157  Identities=38%  Similarity=0.685  Sum_probs=145.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+||+||.+.+..++..+++++|++|+|||++++.++
T Consensus        34 ~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi~v~D~~~~~s~  113 (193)
T 2oil_A           34 SGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTY  113 (193)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTTCCEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECCCHHHH
Confidence            69999999999999999888889999988888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ..+..|+..+......+.|+++|+||+|+...+.+..+++..++...+++++++||+++.|++++|++|.+.+.++.
T Consensus       114 ~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  190 (193)
T 2oil_A          114 AVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKV  190 (193)
T ss_dssp             HTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCeEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            99999999998766678999999999999877778888889999999999999999999999999999999887753

>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=2e-34  Score=199.21  Aligned_cols=156  Identities=49%  Similarity=0.785  Sum_probs=143.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        32 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilV~d~~~~~s~  111 (192)
T 2fg5_A           32 TGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSF  111 (192)
T ss_dssp             TTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCTHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCCEEEEEEeCCCHHHH
Confidence            68999999999999998888889999998888888888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+..+......+.|+++|+||+|+.+.+.+..+++..+++.++++++++||+++.|++++|++|.+.+.+.
T Consensus       112 ~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  187 (192)
T 2fg5_A          112 YTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPPL  187 (192)
T ss_dssp             HHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTTTTBSHHHHHHHHHHTCC--
T ss_pred             HHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHHHhh
Confidence            9999999999887667899999999999987778888899999999999999999999999999999999877554

>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=5.9e-34  Score=194.58  Aligned_cols=157  Identities=42%  Similarity=0.715  Sum_probs=135.0

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|||||||+++|.+..+. ..+.++++.++....+..++..+.+.+||+||++.+..++..+++++|++|+|||++++.+
T Consensus        19 ~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s   98 (180)
T 2g6b_A           19 SGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKAS   98 (180)
T ss_dssp             TTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHH
T ss_pred             CCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCCCEEEEEEECCCHHH
Confidence            689999999999998885 4667888988888888889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           80 FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ++.+..|+..+......+.|+++++||+|+.+.+.+..+++..+++.++++++++||+++.|++++|++|.+.+.++.
T Consensus        99 ~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  176 (180)
T 2g6b_A           99 FDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRS  176 (180)
T ss_dssp             HHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            999999999998876678999999999999877778888889999999999999999999999999999999887654

>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=5e-34  Score=192.72  Aligned_cols=154  Identities=35%  Similarity=0.587  Sum_probs=142.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+..++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        14 ~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   93 (168)
T 1z2a_A           14 GAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESF   93 (168)
T ss_dssp             TTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEEEEEECcCHHHH
Confidence            68999999999999999888889999888888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+.... .+.|+++++||+|+.+.+++..+++..+++..+++++++||+++.|++++|++|.+.+.+
T Consensus        94 ~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  167 (168)
T 1z2a_A           94 EAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ  167 (168)
T ss_dssp             HTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhC-CCCCEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHhh
Confidence            99999999987765 678999999999998777788888899999999999999999999999999999998764

>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=2.1e-34  Score=196.47  Aligned_cols=157  Identities=32%  Similarity=0.503  Sum_probs=139.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECC-eEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNE-VTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      ||||||||+++|.++.+...+.++++.++....+.+++ ..+.+.+||+||++.+..++..+++++|++++|||++++++
T Consensus        15 ~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   94 (178)
T 2hxs_A           15 GASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQS   94 (178)
T ss_dssp             TTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSEEEEEEETTCHHH
T ss_pred             CCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCEEEEEEECCCHHH
Confidence            69999999999999988877888998888888888876 67899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCC---CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           80 FERAKKWVQELQRQGN---PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~---~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ++.+..|+..+.....   ..+|+++++||+|+.+.+.+..+++..+++.++++++++||++|.|++++|++|.+.+.+.
T Consensus        95 ~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  174 (178)
T 2hxs_A           95 FENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGI  174 (178)
T ss_dssp             HHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            9999999988876421   3444899999999987778888889999999999999999999999999999999988765


Q ss_pred             C
Q 030225          157 N  157 (181)
Q Consensus       157 ~  157 (181)
                      .
T Consensus       175 ~  175 (178)
T 2hxs_A          175 K  175 (178)
T ss_dssp             C
T ss_pred             h
Confidence            4

>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=1.6e-33  Score=192.41  Aligned_cols=157  Identities=27%  Similarity=0.509  Sum_probs=142.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++..+. ..+..++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        18 ~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   96 (181)
T 2fn4_A           18 GGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSF   96 (181)
T ss_dssp             TTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCEEEEEEeCCCHHHH
Confidence            689999999999999988888888887765 6677888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHH-hCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~-~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      ..+..|+..+.. ....+.|+++++||+|+.+.+++..+++..++...+++++++||++|.|++++|++|.+.+.+.+.
T Consensus        97 ~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~~  175 (181)
T 2fn4_A           97 NEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQE  175 (181)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHHhhc
Confidence            999999988855 334688999999999998878888888899999999999999999999999999999999987654

>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=3.8e-34  Score=197.90  Aligned_cols=156  Identities=37%  Similarity=0.696  Sum_probs=136.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        35 ~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~  114 (192)
T 2il1_A           35 RGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETF  114 (192)
T ss_dssp             TTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHH
Confidence            68999999999999998888889999888888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHc-CCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQEN-GLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+..+......+.|+++|+||+|+.+.+++..+++..+++.. +++++++||++|.|++++|++|.+.+.++
T Consensus       115 ~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~  191 (192)
T 2il1_A          115 DDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKK  191 (192)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            99999999988876678999999999999877788888888888874 78999999999999999999999988654

>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=6.8e-34  Score=193.94  Aligned_cols=155  Identities=43%  Similarity=0.746  Sum_probs=142.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+||+||++.+...+..+++++|++++|||++++.++
T Consensus        23 ~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  102 (179)
T 2y8e_A           23 QSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSF  102 (179)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHH
Confidence            68999999999999999888889999888888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ..+..|+..+......+.|+++++||+|+.+.+++..+++..+++..+++++++||+++.|++++|++|.+.+.+
T Consensus       103 ~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  177 (179)
T 2y8e_A          103 HQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPG  177 (179)
T ss_dssp             HTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHHHHHTCC-
T ss_pred             HHHHHHHHHHHHhcCCCCcEEEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            999999999887655789999999999998878888888899999999999999999999999999999886643

>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=2e-33  Score=192.53  Aligned_cols=154  Identities=31%  Similarity=0.518  Sum_probs=141.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++..+ ......++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        27 ~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  105 (183)
T 3kkq_A           27 GGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASF  105 (183)
T ss_dssp             TTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHH
Confidence            68999999999999999888888888777 67778899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecC-CCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAK-SAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~-~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+... ...+.|+++++||+|+.+.+.+..+++..+++.++++++++||+ ++.|++++|++|.+.+.+
T Consensus       106 ~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~v~~l~~~l~~~i~~  182 (183)
T 3kkq_A          106 EHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQ  182 (183)
T ss_dssp             HTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHHHHhCCeEEEeccCCCCCCHHHHHHHHHHHHhh
Confidence            9999999988663 34688999999999998888899999999999999999999999 999999999999998865

>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=1.2e-33  Score=192.23  Aligned_cols=157  Identities=32%  Similarity=0.399  Sum_probs=129.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh--hhccchhhccCCcEEEEEEECCChh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER--YHSLAPMYYRGAAAAVVVYDITSMD   78 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--~~~~~~~~~~~~d~~i~v~d~~~~~   78 (181)
                      ||||||||+++|.+..+...+ ++++.++....+.+++..+.+.+||+||+..  +..+...+++.+|++++|||++++.
T Consensus        13 ~~vGKSsl~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~   91 (175)
T 2nzj_A           13 PGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRG   91 (175)
T ss_dssp             TTSSHHHHHHHHHCC-----C-CCSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSEEEEEEETTCHH
T ss_pred             CCccHHHHHHHHhcCCCcccc-CccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCEEEEEEECCCHH
Confidence            699999999999998876654 5677777778888999999999999999987  5666788899999999999999999


Q ss_pred             HHHHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           79 SFERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        79 s~~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +++.+..|+..+.... ..+.|+++++||+|+.+.+++..+++..++..++++++++||++|.|++++|++|.+.+..++
T Consensus        92 s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  171 (175)
T 2nzj_A           92 SFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVRQLRLRR  171 (175)
T ss_dssp             HHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Confidence            9999999998887752 357899999999999877788888888899889999999999999999999999999887654


Q ss_pred             C
Q 030225          158 P  158 (181)
Q Consensus       158 ~  158 (181)
                      .
T Consensus       172 ~  172 (175)
T 2nzj_A          172 R  172 (175)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=8.1e-34  Score=199.43  Aligned_cols=158  Identities=23%  Similarity=0.421  Sum_probs=138.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.+|++.++ ...+.+++..+.+.+||++|++.+..++..+++++|++|+|||+++++++
T Consensus        36 ~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  114 (214)
T 3q3j_B           36 VQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETV  114 (214)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCTHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEECCCCHhHHHHHHHHcCCCeEEEEEEECcCHHHH
Confidence            68999999999999999998889998876 45567788889999999999999999999999999999999999999999


Q ss_pred             HH-HHHHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcCC-eEEEEecCCCCC-HHHH
Q 030225           81 ER-AKKWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENGL-SFLETSAKSAHN-VNEL  145 (181)
Q Consensus        81 ~~-~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~g-i~~~  145 (181)
                      .. +..|+..+.... ++.|+++|+||+|+.+.            +.+..+++..+++.+++ +++++||++|.| ++++
T Consensus       115 ~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~g~v~~l  193 (214)
T 3q3j_B          115 DSALKKWRTEILDYC-PSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSI  193 (214)
T ss_dssp             HHHHTHHHHHHHHHC-TTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCCCEEEEeccCCCcccHHHH
Confidence            99 689999998874 68999999999999653            67888999999999999 999999999998 9999


Q ss_pred             HHHHHHHHHhhCCCC
Q 030225          146 FYEIAKRLAEVNPSR  160 (181)
Q Consensus       146 ~~~l~~~~~~~~~~~  160 (181)
                      |++|++.+.+...+.
T Consensus       194 f~~l~~~~~~~~~~~  208 (214)
T 3q3j_B          194 FRTASMLCLNKPSPL  208 (214)
T ss_dssp             HHHHHHHHHC-----
T ss_pred             HHHHHHHHhccCcCC
Confidence            999999988765543

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=100.00  E-value=2.7e-34  Score=201.42  Aligned_cols=157  Identities=29%  Similarity=0.540  Sum_probs=134.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.+|++..+ ...+.+++..+.+.+||+||++.+..++..+++++|++|+|||+++++++
T Consensus        18 ~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~   96 (212)
T 2j0v_A           18 GAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASY   96 (212)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCCEEEEEEECCCHHHH
Confidence            69999999999999998888888888665 44566788889999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCccccc--------CCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRK--------VKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~--------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      +.+. .|+..+.... ++.|+++|+||+|+.+...        +..+++..+++.+++ +++++||++|+|++++|++|+
T Consensus        97 ~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~  175 (212)
T 2j0v_A           97 ENVLKKWMPELRRFA-PNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAI  175 (212)
T ss_dssp             HHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEccCCCCCCHHHHHHHHH
Confidence            9986 7998887764 5899999999999865443        367788889988896 999999999999999999999


Q ss_pred             HHHHhhCCC
Q 030225          151 KRLAEVNPS  159 (181)
Q Consensus       151 ~~~~~~~~~  159 (181)
                      +.+.+....
T Consensus       176 ~~~~~~~~~  184 (212)
T 2j0v_A          176 KVVLQPPRR  184 (212)
T ss_dssp             HHHHCC---
T ss_pred             HHHhhhhhh
Confidence            998876543

>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=100.00  E-value=3.6e-34  Score=198.68  Aligned_cols=157  Identities=34%  Similarity=0.440  Sum_probs=136.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++++..+. ..+..++..+.+.+||+||++.+..++..++.++|++++|||++++.++
T Consensus        17 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   95 (199)
T 2gf0_A           17 GGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSL   95 (199)
T ss_dssp             TTSSHHHHHHHHHHSCCCCTTSCCCCEEEE-EEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCcHHHHHHHHHcCCCCCcccCcccccee-EEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEEEEEECcCHHHH
Confidence            699999999999999888778788876554 4456788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC--CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGN--PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~--~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+..|+..+.....  .+.|+++|+||+|+.. +.+..+++..+++.++++++++||++|.|++++|++|++.+.+++.
T Consensus        96 ~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~  174 (199)
T 2gf0_A           96 EELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ-REVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNM  174 (199)
T ss_dssp             HTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSS-CSSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHCSSSCE
T ss_pred             HHHHHHHHHHHHHhcCCCCCCEEEEEECccCCc-cccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHhhhhc
Confidence            999888887766432  4789999999999965 5667788888899999999999999999999999999998876654


Q ss_pred             C
Q 030225          159 S  159 (181)
Q Consensus       159 ~  159 (181)
                      .
T Consensus       175 ~  175 (199)
T 2gf0_A          175 S  175 (199)
T ss_dssp             E
T ss_pred             c
Confidence            3

>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=1.6e-33  Score=194.22  Aligned_cols=155  Identities=36%  Similarity=0.637  Sum_probs=139.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh-ccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH-SLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|||||||+++|+++.+...+.++++.++....+.+++..+.+.+||+||++.+. .++..+++++|++|+|||++++.+
T Consensus        29 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~iilv~D~~~~~s  108 (189)
T 1z06_A           29 SNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMAS  108 (189)
T ss_dssp             TTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcCCCEEEEEEECcCHHH
Confidence            6899999999999999988888999998888888899999999999999999888 888999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCC---CCHHHHHHHHHHHHHh
Q 030225           80 FERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSA---HNVNELFYEIAKRLAE  155 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~---~gi~~~~~~l~~~~~~  155 (181)
                      ++.+..|+..+.... ..+.|+++++||+|+.+.+++..+++..+++.++++++++||+++   +|++++|++|++.+.+
T Consensus       109 ~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~i~~l~~~l~~~i~~  188 (189)
T 1z06_A          109 FHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLKS  188 (189)
T ss_dssp             HHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHHHHHHC-----
T ss_pred             HHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHHHHcCCEEEEEeCCcCCcccCHHHHHHHHHHHHhh
Confidence            999999999988764 467999999999999887788888899999999999999999999   9999999999887643

>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=1.6e-33  Score=190.63  Aligned_cols=156  Identities=24%  Similarity=0.278  Sum_probs=126.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc-cchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS-LAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      ||||||||+++|.+..+.....++.+.+.....+.+++..+.+.+||+||++.+.. ++..+++++|++++|||++++++
T Consensus        11 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   90 (169)
T 3q85_A           11 SGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRS   90 (169)
T ss_dssp             TTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEEEEETTCHHH
T ss_pred             CCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEEEEECCChHH
Confidence            69999999999998777766667777777888888999999999999999988776 77888999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCC-CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           80 FERAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ++.+..|+..+..... .+.|+++++||+|+.+.+.+..+++..+++.++++++++||+++.|++++|++|++.+..+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i~~~  168 (169)
T 3q85_A           91 FSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLR  168 (169)
T ss_dssp             HHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEecCccCCCHHHHHHHHHHHHHhc
Confidence            9999999999887643 4799999999999988888999999999999999999999999999999999999988765

>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=4.8e-34  Score=198.37  Aligned_cols=155  Identities=32%  Similarity=0.561  Sum_probs=130.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        37 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~  116 (199)
T 2p5s_A           37 AAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSF  116 (199)
T ss_dssp             TTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhCCEEEEEEECCChHHH
Confidence            68999999999999998888889999888888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCc------ccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLE------EKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+......+.|+++|+||+|+.      ..+.+..+++..+++..+++++++||++|.|++++|++|++.+.
T Consensus       117 ~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gv~el~~~l~~~i~  196 (199)
T 2p5s_A          117 LNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVK  196 (199)
T ss_dssp             HTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            999999999887765689999999999996      34667788888999999999999999999999999999999876


Q ss_pred             h
Q 030225          155 E  155 (181)
Q Consensus       155 ~  155 (181)
                      +
T Consensus       197 ~  197 (199)
T 2p5s_A          197 K  197 (199)
T ss_dssp             C
T ss_pred             h
Confidence            4

>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=1.2e-33  Score=194.69  Aligned_cols=153  Identities=24%  Similarity=0.407  Sum_probs=134.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.+|++..+ ...+.+++..+.+.+||++|++.+..+ ..+++++|++++|||+++++++
T Consensus        30 ~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~ilv~d~~~~~s~  107 (187)
T 3c5c_A           30 RGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHAFLVVYSVDSRQSF  107 (187)
T ss_dssp             TTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCCEEEEEEECCCHHHH
Confidence            69999999999999999888889988776 445678889999999999999988775 6799999999999999999999


Q ss_pred             HHHHHHHHHHHHhC---CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEec-CCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQG---NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSA-KSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~---~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa-~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+....   ..+.|+++++||+|+.+.+.+..+++..+++.++++++++|| +++.|++++|++|++.+.+
T Consensus       108 ~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~g~gv~~lf~~l~~~i~~  186 (187)
T 3c5c_A          108 DSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREARR  186 (187)
T ss_dssp             HHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECCSSSCSHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHHHHHcCCcEEEEeecCccccHHHHHHHHHHHHhh
Confidence            99999999987753   257899999999999887888889999999999999999999 8999999999999998754

>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=3.7e-33  Score=193.08  Aligned_cols=156  Identities=28%  Similarity=0.472  Sum_probs=140.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.+|++..+.. .+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        32 ~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  110 (194)
T 3reg_A           32 GAVGKTCLLLAFSKGEIPTAYVPTVFENFSH-VMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSF  110 (194)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCSEEEEEE-EEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCccCCeeeeeeEE-EEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcEEEEEEECCCHHHH
Confidence            6999999999999999988888998877654 567888999999999999999999999999999999999999999999


Q ss_pred             HHH-HHHHHHHHHhCCCCceEEEEEeCCCCcc--cccCCHHHHHHHHHHcCCe-EEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERA-KKWVQELQRQGNPNLIMFLVANKVDLEE--KRKVKNEEGELYAQENGLS-FLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~--~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+ ..|+..+... .++.|+++|+||+|+.+  .+.+..+++..+++.+++. ++++||++|.|++++|++|++.+.++
T Consensus       111 ~~~~~~~~~~~~~~-~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  189 (194)
T 3reg_A          111 DNISTKWEPEIKHY-IDTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIFSN  189 (194)
T ss_dssp             HHHHHTHHHHHHHH-CTTSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTTBSHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHHh-CCCCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCCCCHHHHHHHHHHHHHhc
Confidence            997 7788888765 36799999999999975  3678888999999999988 99999999999999999999998876


Q ss_pred             CC
Q 030225          157 NP  158 (181)
Q Consensus       157 ~~  158 (181)
                      ++
T Consensus       190 ~~  191 (194)
T 3reg_A          190 KP  191 (194)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=100.00  E-value=7.6e-34  Score=197.67  Aligned_cols=158  Identities=30%  Similarity=0.501  Sum_probs=137.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++++..+ ......++..+.+.+||+||++.+..++..+++++|++++|||+++++++
T Consensus        33 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  111 (201)
T 3oes_A           33 RCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSF  111 (201)
T ss_dssp             TTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCCEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCCEEEEEEeCCCHHHH
Confidence            69999999999999999888888888776 55666777788999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCCC
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS  159 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~  159 (181)
                      +.+..|+..+.... ..++|+++|+||+|+...+.+...++..+++.++++++++||++|.|++++|++|.+.+.+....
T Consensus       112 ~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i~~~~~~  191 (201)
T 3oes_A          112 QVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIARVENS  191 (201)
T ss_dssp             HHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHhhhhh
Confidence            99999999987653 35789999999999988888898999999999999999999999999999999999999887553

>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=5.1e-33  Score=189.44  Aligned_cols=155  Identities=32%  Similarity=0.593  Sum_probs=136.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        16 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   95 (177)
T 1wms_A           16 GGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSF   95 (177)
T ss_dssp             TTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEEEEEEECcCHHHH
Confidence            69999999999999998888889999988888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC----CCceEEEEEeCCCCcccccCCHHHHHHHHH-HcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGN----PNLIMFLVANKVDLEEKRKVKNEEGELYAQ-ENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~----~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+.....    .+.|+++++||+|+. .+.+..+++..+++ ..+++++++||++|.|++++|++|++.+.+
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  174 (177)
T 1wms_A           96 QNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA  174 (177)
T ss_dssp             HTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHccccccCCCcEEEEEECCccc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            999999998876543    678999999999997 46677788888887 557899999999999999999999998875


Q ss_pred             h
Q 030225          156 V  156 (181)
Q Consensus       156 ~  156 (181)
                      .
T Consensus       175 ~  175 (177)
T 1wms_A          175 T  175 (177)
T ss_dssp             C
T ss_pred             h
Confidence            4

>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=1.3e-33  Score=195.78  Aligned_cols=157  Identities=24%  Similarity=0.278  Sum_probs=136.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc-cchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS-LAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      ||||||||+++|.+......+.++++.+.....+.+++..+.+.+||++|+..+.. ++..+++++|++|+|||++++.+
T Consensus        32 ~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s  111 (195)
T 3cbq_A           32 SGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRS  111 (195)
T ss_dssp             TTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHHHCSEEEEEEETTCHHH
T ss_pred             CCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHHhhccCCEEEEEEECCCHHH
Confidence            69999999999986554444556667777777788899999999999999987664 77888999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCC-CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           80 FERAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      |+.+..|+..+..... .+.|+++|+||+|+.+.+.+..+++..+++.++++++++||+++.|++++|++|++.+.+..
T Consensus       112 ~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~lf~~l~~~i~~~~  190 (195)
T 3cbq_A          112 FSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLRR  190 (195)
T ss_dssp             HHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCcCHHHHHHHHHHhCCEEEEEcCCCCCCHHHHHHHHHHHHHHhc
Confidence            9999999999877543 57899999999999877788888999999999999999999999999999999999887644

>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=5.3e-33  Score=191.84  Aligned_cols=157  Identities=31%  Similarity=0.549  Sum_probs=142.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEE-EEEEEECCe---------EEEEEEEeCCChhhhhccchhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFF-TQVLSLNEV---------TIKFDIWDTAGQERYHSLAPMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~---------~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   70 (181)
                      +|||||||+++|.++.+...+.++++.++. ...+..++.         .+.+.+||+||++.+...+..+++++|++|+
T Consensus        20 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   99 (195)
T 3bc1_A           20 SGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLL   99 (195)
T ss_dssp             TTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHHHHHHTTTTCSEEEE
T ss_pred             CCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHHHHHHHHcCCCEEEE
Confidence            689999999999999988888899998877 566666665         7899999999999999999999999999999


Q ss_pred             EEECCChhHHHHHHHHHHHHHHhCC-CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHH
Q 030225           71 VYDITSMDSFERAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        71 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l  149 (181)
                      |||++++.++..+..|+..+..... .+.|+++++||+|+.+.+.+..+++..++...+++++++||+++.|++++|++|
T Consensus       100 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  179 (195)
T 3bc1_A          100 LFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEML  179 (195)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCCEEEEECCCCCCHHHHHHHH
Confidence            9999999999999999999887654 688999999999998777888888999999999999999999999999999999


Q ss_pred             HHHHHhhC
Q 030225          150 AKRLAEVN  157 (181)
Q Consensus       150 ~~~~~~~~  157 (181)
                      .+.+.++.
T Consensus       180 ~~~~~~~~  187 (195)
T 3bc1_A          180 LDLIMKRM  187 (195)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99887753

>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=6.5e-33  Score=194.30  Aligned_cols=156  Identities=39%  Similarity=0.720  Sum_probs=143.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++.+|++|+|||++++.++
T Consensus        29 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~  108 (213)
T 3cph_A           29 SGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTF  108 (213)
T ss_dssp             TTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCCHHHH
Confidence            68999999999999998888889999888888888999889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +.+..|+..+......+.|+++|+||+|+ ..+.+..+++..+++.++++++++||+++.|++++|++|.+.+.++.
T Consensus       109 ~~~~~~~~~i~~~~~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  184 (213)
T 3cph_A          109 TNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI  184 (213)
T ss_dssp             HTHHHHHHHHHHHTTTCSEEEEEEECTTC-SSCCSCHHHHHHHHHHHTCCEEECBTTTTBSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCEEEEEECCCC-cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            99999999998876668999999999999 44667778888899989999999999999999999999999887753

>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=4.5e-33  Score=187.86  Aligned_cols=154  Identities=32%  Similarity=0.566  Sum_probs=135.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++..+. ..+..++..+.+.+||+||++.+..++..+++++|++++|||+++++++
T Consensus        13 ~~~GKssl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   91 (168)
T 1u8z_A           13 GGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESF   91 (168)
T ss_dssp             TTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCccCCCCCCCcceEEE-EEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEEEEECCCHHHH
Confidence            699999999999999988888888776653 4457888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC-CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+..... .+.|+++++||+|+.+.+++..+++..+++.++++++++||+++.|++++|++|.+.+.+
T Consensus        92 ~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  167 (168)
T 1u8z_A           92 AATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             HHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHHHHHHHh
Confidence            999999999877543 579999999999998877888889999999999999999999999999999999998764

>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=7.1e-33  Score=191.48  Aligned_cols=156  Identities=38%  Similarity=0.690  Sum_probs=142.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        24 ~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~  103 (195)
T 1x3s_A           24 SGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTF  103 (195)
T ss_dssp             TTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECcCHHHH
Confidence            68999999999999999888889999999888889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ..+..|+..+.... ..+.|+++++||+|+. .+.+..+++..+++.++++++++||+++.|++++|++|.+.+.+..
T Consensus       104 ~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  180 (195)
T 1x3s_A          104 VKLDNWLNELETYCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTP  180 (195)
T ss_dssp             HTHHHHHHHHTTCCSCSCCEEEEEEECTTSS-SCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHTSG
T ss_pred             HHHHHHHHHHHHhcCcCCCcEEEEEECCcCc-ccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHhhh
Confidence            99999999887653 2578999999999994 3567778888999999999999999999999999999999988653

>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=5.6e-33  Score=187.40  Aligned_cols=154  Identities=27%  Similarity=0.336  Sum_probs=116.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.+..... ..++.+.++ ...+.+++..+.+.+||++|++.+..++..+++.+|++++|||+++++++
T Consensus        11 ~~~GKSsli~~l~~~~~~~-~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   88 (166)
T 3q72_A           11 PGVGKSALARIFGGVEDGP-EAEAAGHTY-DRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSF   88 (166)
T ss_dssp             TTSSHHHHHHHHCCC-----------CEE-EEEEEETTEEEEEEEEECC---------------CCEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHcCccccC-CCCccccce-EEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEEEECCCHHHH
Confidence            6999999999999766543 346666655 45667899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+..+.... ..+.|+++++||+|+.+.+.+..+++..++...+++++++||++|+|++++|++|.+.+.++
T Consensus        89 ~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  165 (166)
T 3q72_A           89 EKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR  165 (166)
T ss_dssp             HHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHHHHHHHHTTCEEEECBGGGTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHHHHHHHHhCCcEEEeccCCCCCHHHHHHHHHHHHHhc
Confidence            99999999987753 36899999999999988888899999999999999999999999999999999999988765

>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=197.53  Aligned_cols=156  Identities=29%  Similarity=0.558  Sum_probs=140.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCe----------EEEEEEEeCCChhhhhccchhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEV----------TIKFDIWDTAGQERYHSLAPMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~----------~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   70 (181)
                      +|||||||+++|++..+...+.++++.++....+.+++.          .+.+.+||+||++.+..++..+++++|++|+
T Consensus        34 ~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iil  113 (217)
T 2f7s_A           34 SGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLL  113 (217)
T ss_dssp             TTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHhHHHHHhcCCCEEEE
Confidence            689999999999999988888889888887777777766          7899999999999999999999999999999


Q ss_pred             EEECCChhHHHHHHHHHHHHHHhCC-CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHH
Q 030225           71 VYDITSMDSFERAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        71 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l  149 (181)
                      |||++++.+++.+..|+..+..... .++|+++|+||+|+.+.+.+..+++..+++.++++++++||+++.|++++|++|
T Consensus       114 V~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l  193 (217)
T 2f7s_A          114 MFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETL  193 (217)
T ss_dssp             EEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTTTBTHHHHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHHHHHHHHHHCCCcEEEEECCCCCCHHHHHHHH
Confidence            9999999999999999888765443 678999999999998877888888999999999999999999999999999999


Q ss_pred             HHHHHhh
Q 030225          150 AKRLAEV  156 (181)
Q Consensus       150 ~~~~~~~  156 (181)
                      .+.+.++
T Consensus       194 ~~~i~~~  200 (217)
T 2f7s_A          194 LDLIMKR  200 (217)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988775

>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=100.00  E-value=4.5e-33  Score=191.49  Aligned_cols=156  Identities=29%  Similarity=0.539  Sum_probs=135.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++. .....+..++..+.+.+||+||++.+..++..++.++|++++|||++++.++
T Consensus        13 ~~~GKSsli~~l~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   91 (189)
T 4dsu_A           13 DGVGKSALTIQLIQNHFVDEYDPTIED-SYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF   91 (189)
T ss_dssp             TTSSHHHHHHHHHHSSCCCCCCTTCCE-EEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCCchh-eEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHH
Confidence            699999999999999988888777754 3445667889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+..|+..+.... ..+.|+++++||+|+.+ .....+++..+++.++++++++||++|.|++++|++|.+.+.+...
T Consensus        92 ~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~  169 (189)
T 4dsu_A           92 EDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS-RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKE  169 (189)
T ss_dssp             HHHHHHHHHHHHHTTCSCCCEEEEEECTTSSS-CSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCcEEEEEECccCcc-cccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhhh
Confidence            99999999987743 36899999999999964 5667788889999999999999999999999999999999887654

>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=4.3e-33  Score=187.95  Aligned_cols=153  Identities=32%  Similarity=0.573  Sum_probs=136.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++++..+. ..+.+++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        12 ~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   90 (167)
T 1c1y_A           12 GGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTF   90 (167)
T ss_dssp             TTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCCccceEE-EEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECCCHHHH
Confidence            699999999999999988888888886654 5567788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHc-CCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQEN-GLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+.... ..+.|+++++||+|+.+.+.+..+++..+++.+ +++++++||++|.|++++|++|.+.+.
T Consensus        91 ~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  166 (167)
T 1c1y_A           91 NDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             HTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHHHHHHHHh
Confidence            99999998887743 368999999999999887788888888998887 799999999999999999999998763

>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=1.3e-32  Score=189.09  Aligned_cols=151  Identities=19%  Similarity=0.350  Sum_probs=132.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.++.+ .+ ...+.+++..+.+.+||++|++.+.     +++++|++++|||++++.++
T Consensus        29 ~~vGKSsL~~~~~~~~~~~~~~~t~~-~~-~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~~~~i~v~d~~~~~s~  101 (184)
T 3ihw_A           29 LSSGKSALVHRYLTGTYVQEESPEGG-RF-KKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWVDAVVFVFSLEDEISF  101 (184)
T ss_dssp             TTSCHHHHHHHHHHSSCCCCCCTTCE-EE-EEEEEETTEEEEEEEEECSSSCCHH-----HHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCcCCCcc-eE-EEEEEECCEEEEEEEEECCCChhhh-----eecCCCEEEEEEECcCHHHH
Confidence            69999999999999999887877743 33 4777889999999999999998766     77889999999999999999


Q ss_pred             HHHHHHHHHHHHhCC-CCceEEEEEeCCCCc--ccccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGN-PNLIMFLVANKVDLE--EKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~--~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+..+..... .+.|+++++||+|+.  ..+.+..+++..+++.++ ++++++||++|.|++++|++|++.+.++
T Consensus       102 ~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gv~~lf~~l~~~i~~~  181 (184)
T 3ihw_A          102 QTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVAL  181 (184)
T ss_dssp             HHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTTTBTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEecCCCCCCHHHHHHHHHHHHHHH
Confidence            999999999987643 578999999999994  467788889999999987 8999999999999999999999998877


Q ss_pred             CC
Q 030225          157 NP  158 (181)
Q Consensus       157 ~~  158 (181)
                      +.
T Consensus       182 ~~  183 (184)
T 3ihw_A          182 RK  183 (184)
T ss_dssp             C-
T ss_pred             hc
Confidence            53

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=100.00  E-value=9.6e-33  Score=191.96  Aligned_cols=156  Identities=28%  Similarity=0.453  Sum_probs=131.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|++..+...+.+|++..+ ...+..++..+.+.+||+||++.+..++..++.++|++|+|||++++.++
T Consensus        29 ~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~  107 (201)
T 2q3h_A           29 GAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSF  107 (201)
T ss_dssp             TTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCCcEEEEEEECCCHHHH
Confidence            68999999999999988888888887655 45567788889999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCcc------------cccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEE------------KRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~  146 (181)
                      +.+. .|+..+.... ++.|+++|+||+|+..            .+.+..+++..+++.+++ +++++||+++.|++++|
T Consensus       108 ~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  186 (201)
T 2q3h_A          108 QNVSEKWVPEIRCHC-PKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF  186 (201)
T ss_dssp             HHHHHTHHHHHHHHC-SSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEEEEEecCCCCCHHHHH
Confidence            9987 7988887764 5899999999999965            256777888899988887 99999999999999999


Q ss_pred             HHHHHHHHhhCC
Q 030225          147 YEIAKRLAEVNP  158 (181)
Q Consensus       147 ~~l~~~~~~~~~  158 (181)
                      ++|++.+.+.+.
T Consensus       187 ~~l~~~~~~~~~  198 (201)
T 2q3h_A          187 DAAIVAGIQYSD  198 (201)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHhcccc
Confidence            999999887654

>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=1.9e-32  Score=190.49  Aligned_cols=154  Identities=48%  Similarity=0.828  Sum_probs=137.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeE-------------------------------------EEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVT-------------------------------------IKF   43 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~-------------------------------------~~~   43 (181)
                      +|||||||+++|++..+...+.++++.++....+.+++..                                     +.+
T Consensus        16 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (208)
T 3clv_A           16 SSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQHNNYNENLCNIKF   95 (208)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC-------------------------------CCCTTTCEEEE
T ss_pred             CCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCccccccccccccccccccccccccccccccccccCccceeEE
Confidence            6899999999999999988888999988888877777655                                     899


Q ss_pred             EEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHH
Q 030225           44 DIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELY  123 (181)
Q Consensus        44 ~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~  123 (181)
                      .+||+||++.+...+..+++.+|++++|||++++.++..+..|+..+....  ..|+++|+||+| ...+.+..+++..+
T Consensus        96 ~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~--~~piilv~NK~D-~~~~~~~~~~~~~~  172 (208)
T 3clv_A           96 DIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISS--NYIIILVANKID-KNKFQVDILEVQKY  172 (208)
T ss_dssp             EEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS--CCEEEEEEECTT-CC-CCSCHHHHHHH
T ss_pred             EEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhC--CCcEEEEEECCC-cccccCCHHHHHHH
Confidence            999999999999999999999999999999999999999999999998764  389999999999 55567788889999


Q ss_pred             HHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225          124 AQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       124 ~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ++.++++++++||+++.|++++|++|.+.+.++.
T Consensus       173 ~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  206 (208)
T 3clv_A          173 AQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKNI  206 (208)
T ss_dssp             HHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCcEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999887653

>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=4.5e-33  Score=190.33  Aligned_cols=157  Identities=38%  Similarity=0.642  Sum_probs=126.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEEC-CeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN-EVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|||||||+++|++..+...+.++++.++....+.++ +..+.+.+||+||++.+...+..+++++|++|+|||++++.+
T Consensus        17 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   96 (182)
T 1ky3_A           17 SGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASS   96 (182)
T ss_dssp             TTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEEEEETTCHHH
T ss_pred             CCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCCEEEEEEECCChHH
Confidence            6899999999999999888888999888888877777 556889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCC----CCceEEEEEeCCCCcc-cccCCHHHHHHHHH-HcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           80 FERAKKWVQELQRQGN----PNLIMFLVANKVDLEE-KRKVKNEEGELYAQ-ENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~----~~~p~ivi~nK~D~~~-~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      ++.+..|+..+.....    .+.|+++++||+|+.. .+.+..+++..+++ ..+++++++||++|.|++++|++|.+.+
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  176 (182)
T 1ky3_A           97 FENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSA  176 (182)
T ss_dssp             HHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHHhcCCCeEEEEecCCCCCHHHHHHHHHHHH
Confidence            9999999998877543    6789999999999953 45567788888887 4568999999999999999999999988


Q ss_pred             HhhC
Q 030225          154 AEVN  157 (181)
Q Consensus       154 ~~~~  157 (181)
                      .+++
T Consensus       177 ~~~~  180 (182)
T 1ky3_A          177 LQQN  180 (182)
T ss_dssp             HHHH
T ss_pred             HHhh
Confidence            7654

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=100.00  E-value=2e-33  Score=196.09  Aligned_cols=157  Identities=27%  Similarity=0.470  Sum_probs=106.0

Q ss_pred             CCCchhHHHHHHhhC--CCCCccccceeeeEEEEEEEECCe--EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCC
Q 030225            1 MGTGKTSLVLRFVKG--QFFDFQESTIGAAFFTQVLSLNEV--TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITS   76 (181)
Q Consensus         1 ~~~GKttLl~~l~~~--~~~~~~~~t~~~~~~~~~~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   76 (181)
                      +|||||||+++|.+.  .+...+.+|++.++....+.+++.  .+.+.+||+||++.+..++..+++++|++|+|||+++
T Consensus        29 ~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  108 (208)
T 2yc2_C           29 ATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSS  108 (208)
T ss_dssp             --------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCCCEEEEEEETTC
T ss_pred             CCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhCcEEEEEEECCC
Confidence            689999999999998  777788888887887888888877  8899999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHhCC---CCceEEEEEeCCCCcc-cccCCHHHHHHHHHHcCCeEEEEecCC-CCCHHHHHHHHHH
Q 030225           77 MDSFERAKKWVQELQRQGN---PNLIMFLVANKVDLEE-KRKVKNEEGELYAQENGLSFLETSAKS-AHNVNELFYEIAK  151 (181)
Q Consensus        77 ~~s~~~~~~~~~~~~~~~~---~~~p~ivi~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~-~~gi~~~~~~l~~  151 (181)
                      +.+++.+..|+..+.....   .+.|+++|+||+|+.+ .+.+..+++..+++.++++++++||++ +.|++++|++|.+
T Consensus       109 ~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~gi~~l~~~i~~  188 (208)
T 2yc2_C          109 MESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIAT  188 (208)
T ss_dssp             HHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHHHHTTCEEEECCC-------CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEEeccCCCCcCHHHHHHHHHH
Confidence            9999999999999988765   5899999999999987 678888899999999999999999999 9999999999999


Q ss_pred             HHHhhC
Q 030225          152 RLAEVN  157 (181)
Q Consensus       152 ~~~~~~  157 (181)
                      .+.+..
T Consensus       189 ~~~~~~  194 (208)
T 2yc2_C          189 TFYRNY  194 (208)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            887654

>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=8e-33  Score=186.45  Aligned_cols=154  Identities=34%  Similarity=0.559  Sum_probs=138.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+...+.++++..+ ...+.+++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        12 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   90 (167)
T 1kao_A           12 GGVGKSALTVQFVTGTFIEKYDPTIEDFY-RKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSF   90 (167)
T ss_dssp             TTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCcccCCCCcceeE-EEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCCCHHHH
Confidence            69999999999999998888878877544 56677889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+.... ..+.|+++++||+|+...+++..+++..+++.++++++++||++|.|++++|++|.+.+.+
T Consensus        91 ~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  166 (167)
T 1kao_A           91 QDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMNY  166 (167)
T ss_dssp             HHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            99999998887753 3679999999999998777888888899999999999999999999999999999988754

>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=1.9e-32  Score=191.75  Aligned_cols=156  Identities=28%  Similarity=0.321  Sum_probs=132.3

Q ss_pred             CCCchhHHHHHHhhCCC--CCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh-hhccchhhccCCcEEEEEEECCCh
Q 030225            1 MGTGKTSLVLRFVKGQF--FDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER-YHSLAPMYYRGAAAAVVVYDITSM   77 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d~~i~v~d~~~~   77 (181)
                      ||||||||+++|.+...  ...+ +++|.++....+.+++..+.+.+||++|... +..+...+++.+|++|+|||++++
T Consensus        46 ~~vGKSSLl~r~~~~~~~~~~~~-~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~a~~~ilVydvt~~  124 (211)
T 2g3y_A           46 QGVGKSTLANIFAGVHDSMDSDC-EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDR  124 (211)
T ss_dssp             TTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEETTCH
T ss_pred             CCCCHHHHHHHHHhCCCCCCCcC-CccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHhhCCEEEEEEECCCH
Confidence            79999999999996433  3333 5577777777788899999999999999876 566677888999999999999999


Q ss_pred             hHHHHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           78 DSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        78 ~s~~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ++|+.+..|+..+... ...++|+++|+||+|+.+.+.+..+++..++..++++++++||++|+||+++|++|++.+..+
T Consensus       125 ~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e~~~~a~~~~~~~~e~SAk~g~~v~elf~~l~~~i~~~  204 (211)
T 2g3y_A          125 ASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLR  204 (211)
T ss_dssp             HHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            9999999998888653 235789999999999987778888888888888999999999999999999999999988665


Q ss_pred             C
Q 030225          157 N  157 (181)
Q Consensus       157 ~  157 (181)
                      +
T Consensus       205 ~  205 (211)
T 2g3y_A          205 R  205 (211)
T ss_dssp             C
T ss_pred             c
Confidence            4

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1e-32  Score=191.26  Aligned_cols=156  Identities=33%  Similarity=0.489  Sum_probs=139.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.++++..+ ...+.+++..+.+.+||+||++. ..++..+++++|++++|||+++++++
T Consensus        37 ~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~iilv~D~~~~~s~  114 (196)
T 2atv_A           37 AGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEGFVLVYDITDRGSF  114 (196)
T ss_dssp             TTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCEEEEEEECcCHHHH
Confidence            69999999999999999888888888665 45567888899999999999987 67788899999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCC-CHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAH-NVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+..|+..+.... ..+.|+++++||+|+.+.+++..+++..+++.++++++++||+++. |++++|++|++.+.++++
T Consensus       115 ~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~~gi~~l~~~l~~~i~~~~~  194 (196)
T 2atv_A          115 EEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRRRM  194 (196)
T ss_dssp             HTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhhCCCCCcEEEEEECcccccccccCHHHHHHHHHHhCCeEEEECCCcCCcCHHHHHHHHHHHHHhhcc
Confidence            99999999887743 3688999999999998878888889999999999999999999999 999999999999887643

>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=1.2e-32  Score=189.10  Aligned_cols=153  Identities=28%  Similarity=0.491  Sum_probs=135.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++..+ ...+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        16 ~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   94 (184)
T 1m7b_A           16 SQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETL   94 (184)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEEEEEEECCCHHHH
Confidence            69999999999999999888888888766 34567788889999999999999999999999999999999999999999


Q ss_pred             HHH-HHHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcC-CeEEEEecC-CCCCHHHH
Q 030225           81 ERA-KKWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENG-LSFLETSAK-SAHNVNEL  145 (181)
Q Consensus        81 ~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~Sa~-~~~gi~~~  145 (181)
                      +.+ ..|+..+.... ++.|+++++||+|+.+.            +.+..+++..+++.++ ++++++||+ ++.|++++
T Consensus        95 ~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~gi~~l  173 (184)
T 1m7b_A           95 DSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDI  173 (184)
T ss_dssp             HHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTTBHHHHHHH
T ss_pred             HHHHHHHHHHHHHHC-CCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEEeeecCCCcCHHHH
Confidence            998 78888887764 68999999999999642            5677888899998888 799999999 68999999


Q ss_pred             HHHHHHHHHh
Q 030225          146 FYEIAKRLAE  155 (181)
Q Consensus       146 ~~~l~~~~~~  155 (181)
                      |++|++.+.+
T Consensus       174 ~~~i~~~~l~  183 (184)
T 1m7b_A          174 FHVATLACVN  183 (184)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHhc
Confidence            9999998764

>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=2.2e-32  Score=187.70  Aligned_cols=156  Identities=32%  Similarity=0.564  Sum_probs=140.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++..+ ...+..++..+.+.+||+||++.+..++..+++.+|++++|||+++++++
T Consensus        27 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  105 (187)
T 2a9k_A           27 GGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESF  105 (187)
T ss_dssp             TTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCEEEEEEECcCHHHH
Confidence            68999999999999998888888877665 34557788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC-CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ..+..|+..+..... .+.|+++|+||+|+.+.+++..+++..+++.++++++++||+++.|++++|++|.+.+.+++
T Consensus       106 ~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  183 (187)
T 2a9k_A          106 AATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARK  183 (187)
T ss_dssp             HHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHHHHHHHHhh
Confidence            999999999877543 47899999999999887788888899999999999999999999999999999999987754

>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=2.8e-32  Score=188.58  Aligned_cols=152  Identities=25%  Similarity=0.475  Sum_probs=135.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.+|++..+ ...+.+++..+.+.+||+||++.+..++..+++++|++|+|||+++++++
T Consensus        27 ~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  105 (194)
T 2atx_A           27 GAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASF  105 (194)
T ss_dssp             TTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCcchhHHHHHhcCCCCEEEEEEECCCHHHH
Confidence            68999999999999998888888887665 44566788889999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENGL-SFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~  146 (181)
                      ..+. .|+..+.... ++.|+++++||+|+.+.            +.+..+++..+++.+++ +++++||++|+|++++|
T Consensus       106 ~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  184 (194)
T 2atx_A          106 QNVKEEWVPELKEYA-PNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVF  184 (194)
T ss_dssp             HHHHHTHHHHHHHHS-TTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCTTTCTTHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCcEEEEeeCCCCCCHHHHH
Confidence            9987 7988887764 58899999999999653            46778888999999997 89999999999999999


Q ss_pred             HHHHHHHH
Q 030225          147 YEIAKRLA  154 (181)
Q Consensus       147 ~~l~~~~~  154 (181)
                      ++|++.+.
T Consensus       185 ~~l~~~i~  192 (194)
T 2atx_A          185 DEAIIAIL  192 (194)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99998875

>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=2.4e-32  Score=187.41  Aligned_cols=155  Identities=26%  Similarity=0.484  Sum_probs=136.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++++..+ ...+.+++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        14 ~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   92 (186)
T 1mh1_A           14 GAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASF   92 (186)
T ss_dssp             TTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEEEEEECCChhhH
Confidence            69999999999999998888888887655 44567889999999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENGL-SFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~  146 (181)
                      ..+. .|+..+.... ++.|+++++||+|+.+.            +.+..+++..+++..++ +++++||++|.|++++|
T Consensus        93 ~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  171 (186)
T 1mh1_A           93 ENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF  171 (186)
T ss_dssp             HHHHHTHHHHHHHHS-TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEecCCCccCHHHHH
Confidence            9987 7888887764 48899999999998653            46677888889998887 99999999999999999


Q ss_pred             HHHHHHHHhhC
Q 030225          147 YEIAKRLAEVN  157 (181)
Q Consensus       147 ~~l~~~~~~~~  157 (181)
                      ++|.+.+.+..
T Consensus       172 ~~l~~~~~~~~  182 (186)
T 1mh1_A          172 DEAIRAVLCPP  182 (186)
T ss_dssp             HHHHHHHSCCC
T ss_pred             HHHHHHHhccc
Confidence            99999886543

>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=100.00  E-value=4e-32  Score=185.34  Aligned_cols=150  Identities=23%  Similarity=0.350  Sum_probs=128.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+.. +.+|++..+ ...+.+++..+.+.+||++|++.     ..+++++|++|+|||+++++++
T Consensus        16 ~~vGKTsli~~l~~~~~~~-~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~ilv~D~~~~~s~   88 (178)
T 2iwr_A           16 ARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADAVIFVFSLEDENSF   88 (178)
T ss_dssp             GGGCHHHHHHHHHHSCCCC-CSSCSSSEE-EEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCC-cCCCcceeE-EEEEEECCEEEEEEEEECCCCch-----hHHHHhCCEEEEEEECcCHHHH
Confidence            6899999999999999877 678887554 56677888999999999999875     4578889999999999999999


Q ss_pred             HHHHHHHHHHHHh---CCCCceEEEEEeCCCCc--ccccCCHHHHHHHHHHc-CCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ---GNPNLIMFLVANKVDLE--EKRKVKNEEGELYAQEN-GLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~---~~~~~p~ivi~nK~D~~--~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+...   ..++.|+++++||+|+.  ..+.+..+++..+++.. +++++++||++|.|++++|++|++.+.
T Consensus        89 ~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~  168 (178)
T 2iwr_A           89 QAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVV  168 (178)
T ss_dssp             HHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTBTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEeccccCCHHHHHHHHHHHHH
Confidence            9999977666543   23678999999999994  45677888888888876 689999999999999999999999887


Q ss_pred             hhC
Q 030225          155 EVN  157 (181)
Q Consensus       155 ~~~  157 (181)
                      +..
T Consensus       169 ~~~  171 (178)
T 2iwr_A          169 TLR  171 (178)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            753

>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=2.5e-32  Score=190.63  Aligned_cols=153  Identities=28%  Similarity=0.491  Sum_probs=135.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.+|++..+ ...+.+++..+.+.+||+||++.|..++..+++++|++|+|||++++.++
T Consensus        37 ~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~  115 (205)
T 1gwn_A           37 SQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETL  115 (205)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCCCEEEEEEECCCHHHH
Confidence            69999999999999999888888888776 34567788889999999999999999999999999999999999999999


Q ss_pred             HHH-HHHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcC-CeEEEEecC-CCCCHHHH
Q 030225           81 ERA-KKWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENG-LSFLETSAK-SAHNVNEL  145 (181)
Q Consensus        81 ~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~Sa~-~~~gi~~~  145 (181)
                      +.+ ..|+..+.... ++.|+++|+||+|+.+.            +.+..+++..+++.++ ++++++||+ ++.|++++
T Consensus       116 ~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~gv~~l  194 (205)
T 1gwn_A          116 DSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDI  194 (205)
T ss_dssp             HHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHC-CCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEEEEeeeccCCcCHHHH
Confidence            998 78988887764 67999999999999642            5677888899998888 799999999 68999999


Q ss_pred             HHHHHHHHHh
Q 030225          146 FYEIAKRLAE  155 (181)
Q Consensus       146 ~~~l~~~~~~  155 (181)
                      |++|++.+.+
T Consensus       195 f~~l~~~~l~  204 (205)
T 1gwn_A          195 FHVATLACVN  204 (205)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhh
Confidence            9999998765

>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=1.3e-32  Score=193.67  Aligned_cols=159  Identities=30%  Similarity=0.483  Sum_probs=139.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECC-eEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNE-VTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|||||||+++|+++.+...+.++++.+.........+ ..+.+.+||+||++.+..++..++.++|++|+|||++++.+
T Consensus        20 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   99 (218)
T 4djt_A           20 GGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRIT   99 (218)
T ss_dssp             TTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCSEEEEEEETTCHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCCEEEEEEeCCCHHH
Confidence            69999999999999988888888888877777665554 44889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCCC
Q 030225           80 FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS  159 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~  159 (181)
                      ++.+..|+..+......+.|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|++|.+.+.+....
T Consensus       100 ~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~~~  179 (218)
T 4djt_A          100 CQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDL  179 (218)
T ss_dssp             HHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----CCHHHHHHHTTTCCCEEEEEBTTTTBTTTHHHHHHHHHHHCCTTC
T ss_pred             HHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHhccccc
Confidence            99999999999887666789999999999988778888888888888999999999999999999999999999886554

>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=1.1e-31  Score=186.87  Aligned_cols=153  Identities=32%  Similarity=0.531  Sum_probs=135.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++.. .+.+++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        34 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  112 (201)
T 2gco_A           34 GACGKTCLLIVFSKDQFPEVYVPTVFENYIA-DIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSL  112 (201)
T ss_dssp             TTSSHHHHHHHHHHSSCCSSCCCSSCCCCEE-EEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCcCCcccCCcccceEEE-EEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEEEEEEECCCHHHH
Confidence            6899999999999999988888888877653 467788889999999999999999999999999999999999999999


Q ss_pred             HHH-HHHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHH
Q 030225           81 ERA-KKWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENGL-SFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~  146 (181)
                      +.+ ..|+..+.... ++.|+++++||+|+.+.            +.+..+++..+++..++ +++++||++|.|++++|
T Consensus       113 ~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~  191 (201)
T 2gco_A          113 ENIPEKWTPEVKHFC-PNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF  191 (201)
T ss_dssp             HHHHHTHHHHHHHHS-TTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEEeeCCCCCCHHHHH
Confidence            998 67888877654 57899999999998654            45777888899998887 89999999999999999


Q ss_pred             HHHHHHHHh
Q 030225          147 YEIAKRLAE  155 (181)
Q Consensus       147 ~~l~~~~~~  155 (181)
                      ++|.+.+.+
T Consensus       192 ~~i~~~~l~  200 (201)
T 2gco_A          192 EMATRAGLQ  200 (201)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhc
Confidence            999988753

>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=100.00  E-value=1.4e-31  Score=187.10  Aligned_cols=155  Identities=30%  Similarity=0.536  Sum_probs=130.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++..+... +..++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        34 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~-~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  112 (207)
T 2fv8_A           34 GACGKTCLLIVFSKDEFPEVYVPTVFENYVAD-IEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSL  112 (207)
T ss_dssp             TTSSHHHHHHHHHHSSCC-------CCEEEEE-EEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCcCCCcccceEEEE-EEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEEEEEECCCHHHH
Confidence            69999999999999998888888887766443 67888889999999999999999999999999999999999999999


Q ss_pred             HHH-HHHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHH
Q 030225           81 ERA-KKWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENGL-SFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~  146 (181)
                      +.+ ..|+..+.... ++.|+++|+||+|+...            +.+..+++..++...++ +++++||++|.|++++|
T Consensus       113 ~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~  191 (207)
T 2fv8_A          113 ENIPEKWVPEVKHFC-PNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVF  191 (207)
T ss_dssp             HHHHHTHHHHHHHHS-TTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEeeCCCCCCHHHHH
Confidence            998 67888887754 68899999999999654            45677788888988887 89999999999999999


Q ss_pred             HHHHHHHHhhC
Q 030225          147 YEIAKRLAEVN  157 (181)
Q Consensus       147 ~~l~~~~~~~~  157 (181)
                      ++|++.+.+.+
T Consensus       192 ~~l~~~i~~~~  202 (207)
T 2fv8_A          192 ETATRAALQKR  202 (207)
T ss_dssp             HHHHHHHHSCC
T ss_pred             HHHHHHHHHHh
Confidence            99999887653

>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=100.00  E-value=4.8e-32  Score=190.38  Aligned_cols=155  Identities=30%  Similarity=0.526  Sum_probs=115.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.++++..+ ...+.+++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        43 ~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  121 (214)
T 2j1l_A           43 GGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSF  121 (214)
T ss_dssp             TTSSHHHHHHHHHC-------CCCCCEEE-EEEEEETTEEEEEEEEEC---------------CEEEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEEEEEEECcCHHHH
Confidence            68999999999999888887778876554 45567888999999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENGL-SFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~  146 (181)
                      +.+. .|+..+.... ++.|+++|+||+|+...            +.+..+++..+++..++ +++++||++|.|++++|
T Consensus       122 ~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~  200 (214)
T 2j1l_A          122 DNIFNRWYPEVNHFC-KKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVF  200 (214)
T ss_dssp             HHHHHTHHHHHHHHC-SSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECBTTTTBSHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEecCCCCCCHHHHH
Confidence            9986 7888887764 67899999999999654            26777888899999997 99999999999999999


Q ss_pred             HHHHHHHHhhC
Q 030225          147 YEIAKRLAEVN  157 (181)
Q Consensus       147 ~~l~~~~~~~~  157 (181)
                      ++|++.+.+.+
T Consensus       201 ~~l~~~~~~~~  211 (214)
T 2j1l_A          201 QEAAEVALSSR  211 (214)
T ss_dssp             HHHHHHHHHC-
T ss_pred             HHHHHHHHHhh
Confidence            99999988654

>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=100.00  E-value=2.5e-31  Score=183.17  Aligned_cols=156  Identities=29%  Similarity=0.528  Sum_probs=127.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++++..+ ...+..++..+.+.+||+||++.+..++..+++.+|++++|||++++.++
T Consensus        30 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  108 (190)
T 3con_A           30 GGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSF  108 (190)
T ss_dssp             TTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC-----------CTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCccccCCccceEE-EEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCEEEEEEECcCHHHH
Confidence            68999999999999988877777776554 35567788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC-CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      ..+..|+..+..... .+.|+++++||+|+.. +....+++.++++.++++++++||+++.|++++|++|.+.+.+.+.
T Consensus       109 ~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~  186 (190)
T 3con_A          109 ADINLYREQIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYRM  186 (190)
T ss_dssp             HHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHhCCCCCeEEEEEECCcCCc-ccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHHH
Confidence            999999988877542 5789999999999866 5667788889999999999999999999999999999999887654

>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=2.6e-32  Score=184.88  Aligned_cols=154  Identities=34%  Similarity=0.468  Sum_probs=134.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++++..+. .....++..+.+.+||+||++.+..++..+++.+|++++|||++++.++
T Consensus        12 ~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~   90 (172)
T 2erx_A           12 GGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSL   90 (172)
T ss_dssp             TTSSHHHHHHHHHTCCCCSSCCCCSCEEEE-EEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCCccccEE-EEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEEEEECcCHHHH
Confidence            699999999999999888777788776553 4456788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC--CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGN--PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~--~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+.....  ++.|+++++||+|+.+.+++...++..++..++++++++||+++.|++++|++|.+.+..
T Consensus        91 ~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  167 (172)
T 2erx_A           91 EELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKR  167 (172)
T ss_dssp             HTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHTCCS
T ss_pred             HHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            999999888876432  578999999999998777888888888999899999999999999999999999886543

>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=1.4e-34  Score=201.03  Aligned_cols=156  Identities=42%  Similarity=0.708  Sum_probs=133.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|++..+...+.++++.++....+..++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        42 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  121 (199)
T 3l0i_B           42 SGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESF  121 (199)
T ss_dssp             TTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSEEEECC-CCCSHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCEEEEEEECCCHHHH
Confidence            68999999999999998888889999999889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+..+......+.|+++|+||+|+.+.+.+..+++..+++.++++++++||+++.|++++|++|.+.+.++
T Consensus       122 ~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gv~~l~~~l~~~l~~~  197 (199)
T 3l0i_B          122 NNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKR  197 (199)
T ss_dssp             HHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--CCCCSCC-CHHHHTTTCCBCCCCC---HHHHHHHHHHTTTTTTT
T ss_pred             HHHHHHHHHHHHhccCCCCEEEEEECccCCccccCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            9999999999777667899999999999987777777778888999999999999999999999999998876543

>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=100.00  E-value=2.8e-31  Score=178.58  Aligned_cols=153  Identities=29%  Similarity=0.556  Sum_probs=135.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++..+ ...+..++..+.+.+||+||+..+..++..++..+|++++|||++++.++
T Consensus        12 ~~~GKssl~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~   90 (166)
T 2ce2_X           12 GGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF   90 (166)
T ss_dssp             TTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCcCccccCCccceEE-EEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEEEECCCHHHH
Confidence            69999999999999988887777776544 45567788889999999999999888899999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCC-CCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGN-PNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~-~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ..+..|+..+..... .+.|+++++||+|+.. .....++...+++.++++++++||+++.|++++|++|.+.+.+
T Consensus        91 ~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  165 (166)
T 2ce2_X           91 EDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             HHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEEECTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcCCCCCcEEEEEEchhhhh-cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHh
Confidence            999999998877542 4789999999999876 5667788888999999999999999999999999999998754

>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=100.00  E-value=2.6e-31  Score=183.76  Aligned_cols=157  Identities=27%  Similarity=0.344  Sum_probs=130.1

Q ss_pred             CCCchhHHHHHHhhCC--CCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh-hhccchhhccCCcEEEEEEECCCh
Q 030225            1 MGTGKTSLVLRFVKGQ--FFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER-YHSLAPMYYRGAAAAVVVYDITSM   77 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~--~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d~~i~v~d~~~~   77 (181)
                      ||||||||+++|.+..  +...+ ++++.++....+.+++..+.+.+||++|... +..++..+++.+|++++|||++++
T Consensus        15 ~~vGKSsL~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~~i~v~dv~~~   93 (192)
T 2cjw_A           15 QGVGKSTLANIFAGVHDSMDSDX-EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDR   93 (192)
T ss_dssp             TTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCSEEEEEEETTCH
T ss_pred             CCCCHHHHHHHHhcCcCCcCccc-cccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCCEEEEEEECCCH
Confidence            7999999999999633  33433 4567777777788899999999999999875 566778888999999999999999


Q ss_pred             hHHHHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           78 DSFERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        78 ~s~~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ++|+.+..|+..+.... ..+.|+++++||+|+...+.+..+++..++..++++++++||++|.||+++|++|++.+...
T Consensus        94 ~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~SA~~g~~v~~lf~~l~~~~~~~  173 (192)
T 2cjw_A           94 ASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLR  173 (192)
T ss_dssp             HHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccHHHHHHHHHHhCCceEEeccccCCCHHHHHHHHHHHHHhh
Confidence            99999999988887643 35789999999999987777888888888888899999999999999999999999988665


Q ss_pred             CC
Q 030225          157 NP  158 (181)
Q Consensus       157 ~~  158 (181)
                      ..
T Consensus       174 ~~  175 (192)
T 2cjw_A          174 RD  175 (192)
T ss_dssp             HS
T ss_pred             cc
Confidence            43

>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=99.98  E-value=4.1e-32  Score=191.47  Aligned_cols=156  Identities=32%  Similarity=0.554  Sum_probs=139.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+.+.+...+.+++|.++......+++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        24 ~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~  103 (221)
T 3gj0_A           24 GGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTY  103 (221)
T ss_dssp             TTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTCCEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcCCEEEEEEECCCHHHH
Confidence            69999999999888888888889999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS  159 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~  159 (181)
                      ..+..|+..+.... .+.|+++|+||+|+.+... . .+...+++..+++++++||+++.|++++|++|.+.+......
T Consensus       104 ~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~-~-~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~~~~~~  179 (221)
T 3gj0_A          104 KNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRKV-K-AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL  179 (221)
T ss_dssp             HTHHHHHHHHHHHS-TTCCEEEEEECTTSSSCSS-C-GGGCCHHHHHTCEEEECBGGGTBTTTHHHHHHHHHHHTCTTC
T ss_pred             HHHHHHHHHHHHhC-CCCCEEEEEECCccccccc-c-HHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhCccc
Confidence            99999999998874 5889999999999965332 2 255667888899999999999999999999999999876543

>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=2.2e-32  Score=187.08  Aligned_cols=152  Identities=30%  Similarity=0.554  Sum_probs=117.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.+|++..+. ..+..++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        17 ~~~GKssl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   95 (182)
T 3bwd_D           17 GAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASY   95 (182)
T ss_dssp             TTSSHHHHHHHHHHSCCC----------CB-CCCC-------CEEECCCC-CTTTTTGGGGGTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCeeeeeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEEEEEECCCHHHH
Confidence            689999999999999888888788775543 2244566778889999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCccccc----------CCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRK----------VKNEEGELYAQENGL-SFLETSAKSAHNVNELFYE  148 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~  148 (181)
                      +.+. .|+..+.... ++.|+++++||+|+.+...          +..+++..+++.+++ +++++||++|+|++++|++
T Consensus        96 ~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  174 (182)
T 3bwd_D           96 ENVSKKWIPELKHYA-PGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDA  174 (182)
T ss_dssp             HHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEEECCCCCCHHHHHHH
Confidence            9987 7888887764 5889999999999865443          467788889988896 9999999999999999999


Q ss_pred             HHHHHH
Q 030225          149 IAKRLA  154 (181)
Q Consensus       149 l~~~~~  154 (181)
                      |++.+.
T Consensus       175 l~~~i~  180 (182)
T 3bwd_D          175 AIRVVL  180 (182)
T ss_dssp             HHHHHS
T ss_pred             HHHHHh
Confidence            998764

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.98  E-value=3.8e-31  Score=184.50  Aligned_cols=151  Identities=26%  Similarity=0.501  Sum_probs=130.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.++++..+ ...+.+++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        39 ~~~GKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  117 (204)
T 4gzl_A           39 GAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASF  117 (204)
T ss_dssp             TTSSHHHHHHHHHHSCCCC-CCCCSEEEE-EEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCCCcCCeeccee-EEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEECCCHHHH
Confidence            69999999999999999888878876443 55667788889999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCcccc------------cCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------------KVKNEEGELYAQENGL-SFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~  146 (181)
                      +.+. .|+..+.... .+.|+++++||+|+.+..            .+..+++..+++..++ +++++||++|+|++++|
T Consensus       118 ~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~  196 (204)
T 4gzl_A          118 ENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF  196 (204)
T ss_dssp             HHHHHTHHHHHHHHC-SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEEEEeeCCCCCCHHHHH
Confidence            9987 7888887765 789999999999986543            3777888889998886 59999999999999999


Q ss_pred             HHHHHHH
Q 030225          147 YEIAKRL  153 (181)
Q Consensus       147 ~~l~~~~  153 (181)
                      ++|++.+
T Consensus       197 ~~l~~~~  203 (204)
T 4gzl_A          197 DEAIRAV  203 (204)
T ss_dssp             HHHHHTT
T ss_pred             HHHHHHh
Confidence            9998754

>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=99.98  E-value=3.9e-32  Score=187.97  Aligned_cols=154  Identities=19%  Similarity=0.228  Sum_probs=127.8

Q ss_pred             CCCchhHHHHHHhhCCCCCc-----------cccceeeeEEEEEE-EECCeEEEEEEEeCCChhhhhccchhhccCCcEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDF-----------QESTIGAAFFTQVL-SLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAA   68 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~-----------~~~t~~~~~~~~~~-~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   68 (181)
                      ||||||||++.+.+ .+...           +.+|++.++....+ .+++..+.+.+||+||++.+..++..+++++|++
T Consensus        23 ~~~GKssL~~~l~~-~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~  101 (198)
T 3t1o_A           23 GLSGKTTNLKWIYS-KVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYNASRKLILRGVDGI  101 (198)
T ss_dssp             TTSSHHHHHHHHHH-TSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCSHHHHHHTTTCCEE
T ss_pred             CCCCHHHHHHHHHh-hccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHHHHHHHHHHhcCCEE
Confidence            69999999965554 44444           33566666655555 6677889999999999999999999999999999


Q ss_pred             EEEEECC------ChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCC
Q 030225           69 VVVYDIT------SMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHN  141 (181)
Q Consensus        69 i~v~d~~------~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~g  141 (181)
                      |+|||++      +.+++..+..|+..+. ....+.|+++|+||+|+.+  .+..+++..+++.+++ +++++||++|+|
T Consensus       102 i~v~D~~~~~~~~~~~s~~~l~~~l~~~~-~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  178 (198)
T 3t1o_A          102 VFVADSAPNRLRANAESMRNMRENLAEYG-LTLDDVPIVIQVNKRDLPD--ALPVEMVRAVVDPEGKFPVLEAVATEGKG  178 (198)
T ss_dssp             EEEEECCGGGHHHHHHHHHHHHHHHHHTT-CCTTSSCEEEEEECTTSTT--CCCHHHHHHHHCTTCCSCEEECBGGGTBT
T ss_pred             EEEEECCcchhhHhHHHHHHHHHHHHhhc-cccCCCCEEEEEEchhccc--ccCHHHHHHHHHhcCCceEEEEecCCCcC
Confidence            9999999      5677888888888773 2347899999999999965  3677888899998998 999999999999


Q ss_pred             HHHHHHHHHHHHHhhCC
Q 030225          142 VNELFYEIAKRLAEVNP  158 (181)
Q Consensus       142 i~~~~~~l~~~~~~~~~  158 (181)
                      ++++|++|++.+.++..
T Consensus       179 v~~l~~~l~~~i~~~~~  195 (198)
T 3t1o_A          179 VFETLKEVSRLVLARVA  195 (198)
T ss_dssp             HHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHhh
Confidence            99999999999987654

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.97  E-value=1.7e-31  Score=185.19  Aligned_cols=152  Identities=17%  Similarity=0.248  Sum_probs=121.2

Q ss_pred             CCCchhHHHHHHhhCCCCC-ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFD-FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|||||||+++|++..+.. .+.+|++..+..  +  ++..+.+.+||+||++.+..++..+++++|++|+|||++++++
T Consensus        26 ~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~~~--~--~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s  101 (199)
T 4bas_A           26 DNSGKTTIINQVKPAQSSSKHITATVGYNVET--F--EKGRVAFTVFDMGGAKKFRGLWETYYDNIDAVIFVVDSSDHLR  101 (199)
T ss_dssp             TTSCHHHHHHHHSCCC----CCCCCSSEEEEE--E--EETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEETTCGGG
T ss_pred             CCCCHHHHHHHHhcCCCcccccccccceeEEE--E--EeCCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCcHHH
Confidence            6899999999999999888 778888854432  2  3455688999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCC--------CCceEEEEEeCCCCcccccCCHHHHHH-----H-HHHcCCeEEEEecCCCCCHHHH
Q 030225           80 FERAKKWVQELQRQGN--------PNLIMFLVANKVDLEEKRKVKNEEGEL-----Y-AQENGLSFLETSAKSAHNVNEL  145 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~--------~~~p~ivi~nK~D~~~~~~~~~~~~~~-----~-~~~~~~~~~~~Sa~~~~gi~~~  145 (181)
                      |..+..|+..+.....        .+.|+++|+||+|+.+...  .++...     . ++..+++++++||++++|++++
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l  179 (199)
T 4bas_A          102 LCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKT--AAELVEILDLTTLMGDHPFVIFASNGLKGTGVHEG  179 (199)
T ss_dssp             HHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCC--HHHHHHHHTHHHHHTTSCEEEEECBTTTTBTHHHH
T ss_pred             HHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCC--HHHHHHHhcchhhccCCeeEEEEeeCCCccCHHHH
Confidence            9999999888866411        3789999999999965422  122111     1 1446789999999999999999


Q ss_pred             HHHHHHHHHhhCC
Q 030225          146 FYEIAKRLAEVNP  158 (181)
Q Consensus       146 ~~~l~~~~~~~~~  158 (181)
                      |++|++.+.+...
T Consensus       180 ~~~l~~~~~~~~~  192 (199)
T 4bas_A          180 FSWLQETASRQSG  192 (199)
T ss_dssp             HHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988754

>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=7.7e-30  Score=177.17  Aligned_cols=157  Identities=41%  Similarity=0.711  Sum_probs=140.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+.+++..+.+.+||++|++.+..++..++++++++++|+|+++..++
T Consensus        14 ~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   93 (199)
T 2f9l_A           14 SGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTY   93 (199)
T ss_dssp             TTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEEEEEECcCHHHH
Confidence            69999999999999998888889998888888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ..+..|+..+........|+++++||+|+.+.+.+...++..++...++.++++||+++.|++++|++|.+.+.+..
T Consensus        94 ~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~~d~Sal~~~~i~~l~~~l~~~~~~~~  170 (199)
T 2f9l_A           94 ENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIV  170 (199)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            99989988887655567899999999999877778888889999999999999999999999999999999887653

>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=3.9e-31  Score=179.06  Aligned_cols=150  Identities=22%  Similarity=0.343  Sum_probs=119.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+.. +.+|++...  ..+.++  .+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        16 ~~~GKssl~~~l~~~~~~~-~~~t~~~~~--~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~   90 (171)
T 1upt_A           16 DGAGKTTILYRLQVGEVVT-TIPTIGFNV--ETVTYK--NLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRI   90 (171)
T ss_dssp             TTSSHHHHHHHHHHSSCCC-CCCCSSEEE--EEEEET--TEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTH
T ss_pred             CCCCHHHHHHHHhcCCCCC-cCCcCccce--EEEEEC--CEEEEEEECCCChhhhHHHHHHhccCCEEEEEEECCCHHHH
Confidence            6899999999999988754 557777543  334444  46788999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHH-----HHHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGEL-----YAQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      ..+..|+..+.... ..+.|+++++||+|+.+...  ..+...     .+...+++++++||+++.|++++|++|.+.+.
T Consensus        91 ~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  168 (171)
T 1upt_A           91 GISKSELVAMLEEEELRKAILVVFANKQDMEQAMT--SSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLK  168 (171)
T ss_dssp             HHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCCC--HHHHHHHhCchhccCCceEEEECcCCCCcCHHHHHHHHHHHHh
Confidence            99998888876642 26789999999999965322  222222     12234568999999999999999999999887


Q ss_pred             hhC
Q 030225          155 EVN  157 (181)
Q Consensus       155 ~~~  157 (181)
                      ++|
T Consensus       169 ~~q  171 (171)
T 1upt_A          169 SRQ  171 (171)
T ss_dssp             TCC
T ss_pred             hcC
Confidence            654

>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=1.5e-30  Score=180.70  Aligned_cols=145  Identities=17%  Similarity=0.201  Sum_probs=113.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+. .+.+|++...  ..+.+++  +.+.+||+||++.++.++..+++++|++++|||+++++++
T Consensus        34 ~~vGKSsLi~~l~~~~~~-~~~~t~~~~~--~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~  108 (198)
T 1f6b_A           34 DNAGKTTLLHMLKDDRLG-QHVPTLHPTS--EELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERL  108 (198)
T ss_dssp             TTSSHHHHHHHHSCC-------CCCCCSC--EEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHhcCCCC-ccCCCCCcee--EEEEECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEEEEEECCCHHHH
Confidence            699999999999988764 4567777654  3445565  6889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHH-----------------cCCeEEEEecCCCCCH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE-----------------NGLSFLETSAKSAHNV  142 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~Sa~~~~gi  142 (181)
                      ..+..|+..+... ...+.|+++++||+|+.+  .+..+++..++..                 .+++++++||++|+|+
T Consensus       109 ~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv  186 (198)
T 1f6b_A          109 LESKEELDSLMTDETIANVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGY  186 (198)
T ss_dssp             HHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTTTBSH
T ss_pred             HHHHHHHHHHHhCcccCCCcEEEEEECCCccc--cCCHHHHHHHhCcccccccccccccccccCceEEEEEEECCCCCCH
Confidence            9999999988764 236789999999999965  4566666666542                 3467999999999999


Q ss_pred             HHHHHHHHHH
Q 030225          143 NELFYEIAKR  152 (181)
Q Consensus       143 ~~~~~~l~~~  152 (181)
                      +++|++|.+.
T Consensus       187 ~~l~~~l~~~  196 (198)
T 1f6b_A          187 GEGFRWMAQY  196 (198)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHHh
Confidence            9999999764

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.97  E-value=2.1e-31  Score=179.33  Aligned_cols=148  Identities=20%  Similarity=0.322  Sum_probs=115.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+.. +.||++...  ..+..  ..+.+.+||+||++.+..++..+++++|++++|||+++++++
T Consensus         9 ~~~GKssl~~~l~~~~~~~-~~~t~~~~~--~~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   83 (164)
T 1r8s_A            9 DAAGKTTILYKLKLGEIVT-TIPTIGFNV--ETVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERV   83 (164)
T ss_dssp             TTSSHHHHHHHHHHHCSSC-CCCCSSCCE--EEEEC--SSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHHcCCcCc-ccCcCceeE--EEEEE--CCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEECCCHHHH
Confidence            6999999999999888765 557777432  23333  446889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHH-----HHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELY-----AQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      ..+..|+..+... ...+.|+++++||+|+.+..  ...+....     ++..+++++++||++|.|++++|++|.+.+.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  161 (164)
T 1r8s_A           84 NEAREELMRMLAEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLR  161 (164)
T ss_dssp             HHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCC--CHHHHHHHhCcccccCccEEEEEcccCCCcCHHHHHHHHHHHHh
Confidence            9999998888663 23678999999999996532  22222221     1123457999999999999999999998775


Q ss_pred             h
Q 030225          155 E  155 (181)
Q Consensus       155 ~  155 (181)
                      +
T Consensus       162 ~  162 (164)
T 1r8s_A          162 N  162 (164)
T ss_dssp             -
T ss_pred             h
Confidence            4

>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=7e-30  Score=176.22  Aligned_cols=145  Identities=18%  Similarity=0.216  Sum_probs=119.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+.. +.+|++...  ..+.+++  +.+.+||+||++.++.++..+++++|++++|||+++++++
T Consensus        32 ~~vGKSsli~~l~~~~~~~-~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  106 (190)
T 1m2o_B           32 DNAGKTTLLHMLKNDRLAT-LQPTWHPTS--EELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERF  106 (190)
T ss_dssp             TTSSHHHHHHHHHHSCCCC-CCCCCSCEE--EEEEETT--EEEEEEECCCSGGGTTSGGGGCTTCCEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHhcCCCCc-cccCCCCCe--EEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCChHHH
Confidence            6999999999999988754 567777643  4455565  7889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHH------------cCCeEEEEecCCCCCHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE------------NGLSFLETSAKSAHNVNELFY  147 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~------------~~~~~~~~Sa~~~~gi~~~~~  147 (181)
                      +.+..|+..+... ...+.|+++++||+|+.+  .+..++..+.+..            .+++++++||++|+|++++|+
T Consensus       107 ~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  184 (190)
T 1m2o_B          107 DEARVELDALFNIAELKDVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQ  184 (190)
T ss_dssp             HHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT--CCCHHHHHHHTTCSSCCC---CCSSCCEEEEECBTTTTBSHHHHHH
T ss_pred             HHHHHHHHHHHcchhhcCCCEEEEEECCCCcC--CCCHHHHHHHhCCccccccccccccceEEEEEeECCcCCCHHHHHH
Confidence            9999999888764 236789999999999965  4555665555432            346899999999999999999


Q ss_pred             HHHHH
Q 030225          148 EIAKR  152 (181)
Q Consensus       148 ~l~~~  152 (181)
                      +|.+.
T Consensus       185 ~l~~~  189 (190)
T 1m2o_B          185 WLSQY  189 (190)
T ss_dssp             HHHTT
T ss_pred             HHHhh
Confidence            99753

>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=2.5e-31  Score=183.11  Aligned_cols=150  Identities=22%  Similarity=0.311  Sum_probs=120.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.+|++.++..  +.  ...+.+.+||+||++.+..++..+++++|++|+|||+++++++
T Consensus        31 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~--~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~  106 (188)
T 1zd9_A           31 QYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--IT--KGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKI  106 (188)
T ss_dssp             TTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EE--ETTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHHcCCCCCccCCCCceeEEE--EE--eCCEEEEEEECCCCHhHHHHHHHHHccCCEEEEEEECCCHHHH
Confidence            6899999999999999888788888876643  22  3356788999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHH-----HHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYA-----QENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+.... ..+.|+++|+||+|+.+..  ..++.....     ...+++++++||++|.|++++|++|.+.+.
T Consensus       107 ~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~  184 (188)
T 1zd9_A          107 EASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHSK  184 (188)
T ss_dssp             HHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhCcccCCCCEEEEEECCCCccCC--CHHHHHHHhChhhhccCCeeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            99999988886642 2678999999999996532  222222211     123467999999999999999999988765


Q ss_pred             hh
Q 030225          155 EV  156 (181)
Q Consensus       155 ~~  156 (181)
                      ++
T Consensus       185 ~~  186 (188)
T 1zd9_A          185 SR  186 (188)
T ss_dssp             --
T ss_pred             hh
Confidence            43

>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=3.1e-30  Score=177.43  Aligned_cols=153  Identities=20%  Similarity=0.275  Sum_probs=117.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+. .+.+|++....  .+.+++  +.+.+||+||++.+..++..+++++|++++|||+++++++
T Consensus        25 ~~~GKssl~~~l~~~~~~-~~~~t~~~~~~--~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~   99 (187)
T 1zj6_A           25 DNAGKTTILYQFSMNEVV-HTSPTIGSNVE--EIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERI   99 (187)
T ss_dssp             TTSSHHHHHHHHHTTSCE-EEECCSCSSCE--EEEETT--EEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTH
T ss_pred             CCCCHHHHHHHHhcCCCC-cCcCCCccceE--EEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHH
Confidence            689999999999988876 56677775543  334444  6888999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHH-----HcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQ-----ENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+.... ..+.|+++++||+|+.+.  ...++......     ..+++++++||++|+|++++|++|++.+.
T Consensus       100 ~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~  177 (187)
T 1zj6_A          100 SVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLK  177 (187)
T ss_dssp             HHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhchhhCCCeEEEEEECCCCcCC--CCHHHHHHHhChhhhcCCCcEEEEccCCCCcCHHHHHHHHHHHHH
Confidence            99999998887642 267899999999999642  23344443332     34568999999999999999999999887


Q ss_pred             hhCCCC
Q 030225          155 EVNPSR  160 (181)
Q Consensus       155 ~~~~~~  160 (181)
                      ...++.
T Consensus       178 ~~~~~~  183 (187)
T 1zj6_A          178 IRLEHH  183 (187)
T ss_dssp             C-----
T ss_pred             HHhhhh
Confidence            665543

>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=1.1e-29  Score=174.47  Aligned_cols=149  Identities=18%  Similarity=0.229  Sum_probs=120.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++. ...+.+|++....  .+..+  .+.+.+||+||++.+...+..+++++|++++|||+++++++
T Consensus        27 ~~~GKssl~~~l~~~~-~~~~~~t~~~~~~--~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~  101 (186)
T 1ksh_A           27 DNAGKTTILKKFNGED-VDTISPTLGFNIK--TLEHR--GFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRM  101 (186)
T ss_dssp             TTSSHHHHHHHHTTCC-CSSCCCCSSEEEE--EEEET--TEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHhcCC-CCcccccCccceE--EEEEC--CEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEECcCHHHH
Confidence            6999999999999888 6667788885543  34444  46788999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHH-----HcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQ-----ENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+... ...+.|+++++||+|+.+...  .++......     ..+++++++||+++.|++++|++|.+.+.
T Consensus       102 ~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  179 (186)
T 1ksh_A          102 QDCQRELQSLLVEERLAGATLLIFANKQDLPGALS--CNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDIS  179 (186)
T ss_dssp             HHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCCC--HHHHHHHhChhhccCCceEEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            9999998888664 236799999999999965322  233333221     24568999999999999999999999887


Q ss_pred             hh
Q 030225          155 EV  156 (181)
Q Consensus       155 ~~  156 (181)
                      ++
T Consensus       180 ~~  181 (186)
T 1ksh_A          180 SR  181 (186)
T ss_dssp             TC
T ss_pred             hc
Confidence            64

>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=99.97  E-value=8e-29  Score=171.06  Aligned_cols=153  Identities=41%  Similarity=0.729  Sum_probs=139.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+...+.++++.++....+.+++..+.+.+||++|.+.+..++..++++++++++|+|.++..++
T Consensus        38 ~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~  117 (191)
T 1oix_A           38 SGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTY  117 (191)
T ss_dssp             TTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCEEEEEEECcCHHHH
Confidence            69999999999999999888889999998888889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +.+..|+..+........|+++++||+|+.+.......++..++...++.++++||+++.|++++|++|.+.+
T Consensus       118 ~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~ld~Sald~~~v~~l~~~l~~~i  190 (191)
T 1oix_A          118 ENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI  190 (191)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            9888898887665556789999999999987777788888999999999999999999999999999998765

>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=1.5e-29  Score=174.44  Aligned_cols=149  Identities=19%  Similarity=0.279  Sum_probs=120.6

Q ss_pred             CCCchhHHHHHHhhCC-CCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQ-FFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|||||||+++|.+.. +...+.+|++..  ...+.+++  +.+.+||+||++.+..++..+++++|++|+|||++++.+
T Consensus        30 ~~~GKSsli~~l~~~~~~~~~~~~t~~~~--~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s  105 (190)
T 2h57_A           30 DNSGKTTIINKLKPSNAQSQNILPTIGFS--IEKFKSSS--LSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLR  105 (190)
T ss_dssp             TTSSHHHHHHHTSCGGGCCSSCCCCSSEE--EEEEECSS--CEEEEEEECCSTTTGGGGGGGGGGCSEEEEEEETTCHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCCcCCcccee--EEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCCHHH
Confidence            6899999999999887 566667777743  34444554  678899999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCC---CCceEEEEEeCCCCcccccCCHHHHHHHHH-----HcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           80 FERAKKWVQELQRQGN---PNLIMFLVANKVDLEEKRKVKNEEGELYAQ-----ENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~---~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +..+..|+..+.....   .+.|+++|+||+|+.+  ....++...++.     ..+++++++||+++.|++++|++|.+
T Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  183 (190)
T 2h57_A          106 MVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRD--AVTSVKVSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQD  183 (190)
T ss_dssp             HHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTT--CCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhChhhccCCCeEEEEEeCcCccc--CCCHHHHHHHhChhhccCCceEEEEccCCCCcCHHHHHHHHHH
Confidence            9999999988877533   5789999999999965  233455555442     23578999999999999999999998


Q ss_pred             HHHh
Q 030225          152 RLAE  155 (181)
Q Consensus       152 ~~~~  155 (181)
                      .+.+
T Consensus       184 ~i~~  187 (190)
T 2h57_A          184 QIQT  187 (190)
T ss_dssp             HC--
T ss_pred             HHHH
Confidence            7654

>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=99.97  E-value=6.9e-31  Score=180.35  Aligned_cols=157  Identities=19%  Similarity=0.373  Sum_probs=117.0

Q ss_pred             CCCchhHHHHHHhhC--CCCCccccceeeeEEEEEEEE---CCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECC
Q 030225            1 MGTGKTSLVLRFVKG--QFFDFQESTIGAAFFTQVLSL---NEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDIT   75 (181)
Q Consensus         1 ~~~GKttLl~~l~~~--~~~~~~~~t~~~~~~~~~~~~---~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   75 (181)
                      ||||||||+++|.+.  .+...+.+|+|.++....+..   ++..+.+.+||++|++.+..++..++++++++++|||++
T Consensus        11 ~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~   90 (184)
T 2zej_A           11 TGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLS   90 (184)
T ss_dssp             TTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSEEEEEEEEGG
T ss_pred             CCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCcEEEEEEeCC
Confidence            699999999999985  455667788888776665543   345678999999999999999999999999999999999


Q ss_pred             Ch-hHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCC---HHHHHHHHHHcCCe----EEEEecCCCC-CHHHHH
Q 030225           76 SM-DSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK---NEEGELYAQENGLS----FLETSAKSAH-NVNELF  146 (181)
Q Consensus        76 ~~-~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~---~~~~~~~~~~~~~~----~~~~Sa~~~~-gi~~~~  146 (181)
                      ++ .+++.+..|+..+.... ++.|+++|+||+|+.+.+.+.   ...+..+++.++++    ++++||+++. |+++++
T Consensus        91 ~~~~s~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~~l~  169 (184)
T 2zej_A           91 KGQAEVDAMKPWLFNIKARA-SSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLR  169 (184)
T ss_dssp             GCHHHHHTHHHHHHHHHHHC-TTCEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCTTSCEEEEEEECCTTSCCHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHhhC-CCCcEEEEEECCCcccchhhHHHHHHHHHHHHHhcCCcchhheEEEecccCchhHHHHH
Confidence            87 57999999999887763 578999999999986544332   23345566566776    9999999996 999999


Q ss_pred             HHHHHHHHhhCC
Q 030225          147 YEIAKRLAEVNP  158 (181)
Q Consensus       147 ~~l~~~~~~~~~  158 (181)
                      +.|.+.+.+.+.
T Consensus       170 ~~i~~~~~~~~~  181 (184)
T 2zej_A          170 KTIINESLNFKI  181 (184)
T ss_dssp             HHHHHHHHCC--
T ss_pred             HHHHHHHhcccc
Confidence            999988776543

>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=99.97  E-value=4.2e-29  Score=185.75  Aligned_cols=153  Identities=25%  Similarity=0.473  Sum_probs=135.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++++..+ ...+.+++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus       164 ~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~  242 (332)
T 2wkq_A          164 GAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASF  242 (332)
T ss_dssp             TTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEEEEETTCHHHH
T ss_pred             CCCChHHHHHHHHhCCCCcccCCccccee-EEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEEEEeCCCHHHH
Confidence            68999999999999998888888887655 45567888999999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCccc------------ccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEK------------RKVKNEEGELYAQENGL-SFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~  146 (181)
                      ..+. .|+..+.... .++|+++|+||+|+...            +.+..+++..+++..++ +++++||++|.|++++|
T Consensus       243 ~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  321 (332)
T 2wkq_A          243 HHVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF  321 (332)
T ss_dssp             HHHHHTHHHHHHHHC-TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHH
T ss_pred             HHHHHHHHHHHHhhC-CCCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEEEEecCCCCcCHHHHH
Confidence            9987 7888887764 48999999999998543            56778888999999997 99999999999999999


Q ss_pred             HHHHHHHHh
Q 030225          147 YEIAKRLAE  155 (181)
Q Consensus       147 ~~l~~~~~~  155 (181)
                      ++|.+.+..
T Consensus       322 ~~l~~~~~~  330 (332)
T 2wkq_A          322 DEAIRAVLC  330 (332)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhc
Confidence            999988764

>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=1e-30  Score=180.70  Aligned_cols=148  Identities=18%  Similarity=0.304  Sum_probs=111.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+.. +.||++..  ...+...  .+.+.+||+||++.+..++..+++++|++++|||+++++++
T Consensus        38 ~~vGKSsLi~~l~~~~~~~-~~~t~~~~--~~~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~  112 (192)
T 2b6h_A           38 DAAGKTTILYKLKLGEIVT-TIPTIGFN--VETVEYK--NICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERV  112 (192)
T ss_dssp             TTSSHHHHHHHHCSSCCEE-EEEETTEE--EEEEEET--TEEEEEEECC-----CTTHHHHHHTCCEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHHhCCccc-cCCcCcee--EEEEEEC--CEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHH
Confidence            6999999999999888764 45666633  3333443  46888999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHH-----HHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELY-----AQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+... ...+.|+++++||+|+.+..  ..++....     +...+++++++||++|.|++++|++|++.+.
T Consensus       113 ~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~  190 (192)
T 2b6h_A          113 QESADELQKMLQEDELRDAVLLVFANKQDMPNAM--PVSELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSHELS  190 (192)
T ss_dssp             HHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcccccCCCeEEEEEECCCCCCCC--CHHHHHHHhCcccccCCceEEEECcCCCcCCHHHHHHHHHHHHh
Confidence            9999999888663 23578999999999996532  22222221     1123457999999999999999999998764


Q ss_pred             h
Q 030225          155 E  155 (181)
Q Consensus       155 ~  155 (181)
                      +
T Consensus       191 ~  191 (192)
T 2b6h_A          191 K  191 (192)
T ss_dssp             T
T ss_pred             c
Confidence            3

>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=99.97  E-value=9.5e-30  Score=174.16  Aligned_cols=145  Identities=20%  Similarity=0.293  Sum_probs=117.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+ ..+.++++....  .+.+++  +.+.+||+||++.+..++..+++++|++++|||+++++++
T Consensus        30 ~~~GKSsli~~l~~~~~-~~~~~t~~~~~~--~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~  104 (181)
T 2h17_A           30 DNAGKTTILYQFSMNEV-VHTSPTIGSNVE--EIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERI  104 (181)
T ss_dssp             TTSSHHHHHHHHHTTSC-EEEECCSSSSCE--EEEETT--EEEEEEEESSSGGGTCGGGGGGTTCCEEEEEEETTCTTTH
T ss_pred             CCCCHHHHHHHHhcCCC-CccCCcCceeeE--EEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHH
Confidence            69999999999999887 556677776543  334444  6888999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHH-----HHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYA-----QENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      +.+..|+..+.... ..+.|+++++||+|+.+.  ...++.....     ...+++++++||++|.|++++|++|++.
T Consensus       105 ~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  180 (181)
T 2h17_A          105 SVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSR  180 (181)
T ss_dssp             HHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhChhhCCCeEEEEEECCCcccC--CCHHHHHHHhCcccccCCceEEEEccCCCCcCHHHHHHHHHhh
Confidence            99999988887642 367899999999998552  2334443332     2235689999999999999999999763

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.97  E-value=1.7e-30  Score=178.99  Aligned_cols=150  Identities=24%  Similarity=0.354  Sum_probs=118.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+.. +.+|++...  ..+..+  .+.+.+||+||++.+...+..+++++|++++|+|+++++++
T Consensus        31 ~~~GKssli~~l~~~~~~~-~~~t~~~~~--~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~  105 (189)
T 2x77_A           31 DNAGKTSILYRLHLGDVVT-TVPTVGVNL--ETLQYK--NISFEVWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRM  105 (189)
T ss_dssp             TTSSHHHHHHHTCCSCCEE-ECSSTTCCE--EEEEET--TEEEEEEEECCSSSSCCCCSSSSTTCCEEEEEEETTCCTTH
T ss_pred             CCCCHHHHHHHHHcCCCCC-cCCCCceEE--EEEEEC--CEEEEEEECCCCHhHHHHHHHHhhcCCEEEEEEeCCCHHHH
Confidence            6999999999999887754 557777443  334444  46788999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHH-----HHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELY-----AQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      ..+..|+..+.... ..+.|+++++||+|+.+...  .++....     +...+++++++||+++.|++++|++|.+.+.
T Consensus       106 ~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  183 (189)
T 2x77_A          106 GVAKHELYALLDEDELRKSLLLIFANKQDLPDAAS--EAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLVERLR  183 (189)
T ss_dssp             HHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCCC--HHHHHHHhChhhccCCceEEEEccCCCccCHHHHHHHHHHHHH
Confidence            99998888876642 36789999999999965322  2222221     1223568999999999999999999999987


Q ss_pred             hhC
Q 030225          155 EVN  157 (181)
Q Consensus       155 ~~~  157 (181)
                      +++
T Consensus       184 ~~~  186 (189)
T 2x77_A          184 EQG  186 (189)
T ss_dssp             HTC
T ss_pred             hcc
Confidence            654

>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=99.97  E-value=2.7e-30  Score=176.98  Aligned_cols=149  Identities=19%  Similarity=0.246  Sum_probs=115.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.+..+. .+.+|+|...  ..+..+  .+.+.+||+||++.+...+..+++++|++++|||+++++++
T Consensus        25 ~~vGKSsL~~~l~~~~~~-~~~~t~g~~~--~~~~~~--~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   99 (181)
T 1fzq_A           25 DNAGKTTLLKQLASEDIS-HITPTQGFNI--KSVQSQ--GFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRF   99 (181)
T ss_dssp             TTSSHHHHHHHHCCSCCE-EEEEETTEEE--EEEEET--TEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHhcCCCC-cccCcCCeEE--EEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECcCHHHH
Confidence            699999999999987653 4567777543  334444  46788999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHH-----HHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYA-----QENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+... ...+.|+++++||+|+.+...  .++.....     ...+++++++||++|+|++++|++|++.+.
T Consensus       100 ~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~  177 (181)
T 1fzq_A          100 EETGQELTELLEEEKLSCVPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVN  177 (181)
T ss_dssp             HHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHTC-
T ss_pred             HHHHHHHHHHHhChhhcCCCEEEEEECcCcccCCC--HHHHHHHhCchhccCCceEEEEccCCCCCCHHHHHHHHHHHHH
Confidence            9999998877553 236789999999999965432  22322221     123467999999999999999999998765


Q ss_pred             hh
Q 030225          155 EV  156 (181)
Q Consensus       155 ~~  156 (181)
                      ++
T Consensus       178 ~~  179 (181)
T 1fzq_A          178 AK  179 (181)
T ss_dssp             --
T ss_pred             hc
Confidence            43

>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=2.4e-29  Score=172.17  Aligned_cols=150  Identities=24%  Similarity=0.344  Sum_probs=116.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+ ..+.++++...  ..+.+++  +.+.+||+||++.+...+..+++++|++++|+|+++++++
T Consensus        27 ~~~GKssli~~l~~~~~-~~~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~  101 (183)
T 1moz_A           27 DGAGKTTILYRLQIGEV-VTTKPTIGFNV--ETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRM  101 (183)
T ss_dssp             TTSSHHHHHHHTCCSEE-EEECSSTTCCE--EEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTH
T ss_pred             CCCCHHHHHHHHhcCCc-CccCCcCccce--EEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHH
Confidence            69999999999998877 55667777543  3344444  6788999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHH-----HcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQ-----ENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+.... ..+.|+++++||+|+.+.  ...++......     ..+++++++||++++|++++|++|.+.+.
T Consensus       102 ~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  179 (183)
T 1moz_A          102 STASKELHLMLQEEELQDAALLVFANKQDQPGA--LSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIK  179 (183)
T ss_dssp             HHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC--CCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcChhhCCCeEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEEccCCCCcCHHHHHHHHHHHHH
Confidence            99999988886643 368899999999998653  23334333322     12357999999999999999999999887


Q ss_pred             hhC
Q 030225          155 EVN  157 (181)
Q Consensus       155 ~~~  157 (181)
                      +++
T Consensus       180 ~~q  182 (183)
T 1moz_A          180 EEQ  182 (183)
T ss_dssp             HHH
T ss_pred             hcc
Confidence            653

>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=1e-31  Score=187.24  Aligned_cols=151  Identities=27%  Similarity=0.511  Sum_probs=128.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.++++..+ ...+.+++..+.+.+||+||++.+..++..+++++|++++|||++++.++
T Consensus        39 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~  117 (204)
T 3th5_A           39 GAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF  117 (204)
Confidence            68999999999999888877777776554 34456677788899999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHHhCCCCceEEEEEeCCCCcccc------------cCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHH
Q 030225           81 ERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKR------------KVKNEEGELYAQENGL-SFLETSAKSAHNVNELF  146 (181)
Q Consensus        81 ~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~  146 (181)
                      +.+. .|+..+.... ++.|+++++||+|+.+..            .+..+++..+++..++ +++++||++|.|++++|
T Consensus       118 ~~~~~~~~~~l~~~~-~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~l~  196 (204)
T 3th5_A          118 ENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF  196 (204)
Confidence            9986 7887776653 478999999999996532            4555667778888887 89999999999999999


Q ss_pred             HHHHHHH
Q 030225          147 YEIAKRL  153 (181)
Q Consensus       147 ~~l~~~~  153 (181)
                      ++|++.+
T Consensus       197 ~~l~~~i  203 (204)
T 3th5_A          197 DEAIRAV  203 (204)
Confidence            9998765

>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=9.1e-29  Score=171.37  Aligned_cols=148  Identities=23%  Similarity=0.314  Sum_probs=114.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEE--EEEEEEC-CeEEEEEEEeCCChhhhhccc---hhhccCCcEEEEEEEC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFF--TQVLSLN-EVTIKFDIWDTAGQERYHSLA---PMYYRGAAAAVVVYDI   74 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~--~~~~~~~-~~~~~~~i~D~~G~~~~~~~~---~~~~~~~d~~i~v~d~   74 (181)
                      +|||||||++++.+. +...  ++++.++.  .....+. +..+.+.+||++|++.|....   ..+++++|++|+|||+
T Consensus        29 ~~vGKTsLi~~l~~~-~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~i~v~d~  105 (196)
T 3llu_A           29 RRSGKSSIQKVVFHK-MSPN--ETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDA  105 (196)
T ss_dssp             TTSSHHHHHHHHHSC-CCGG--GGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCHHHHHHTCSEEEEEEET
T ss_pred             CCCCHHHHHHHHHhc-CCCc--ceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhcccccccCCEEEEEEEC
Confidence            689999999987764 3332  34443332  2333333 566789999999999987776   8999999999999999


Q ss_pred             CCh--hHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc-------cccCCHHHHHHHHH----HcCCeEEEEecCCCCC
Q 030225           75 TSM--DSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE-------KRKVKNEEGELYAQ----ENGLSFLETSAKSAHN  141 (181)
Q Consensus        75 ~~~--~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~-------~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~g  141 (181)
                      +++  +++..+..|+..+... .++.|+++|+||+|+..       .+.+...++..+++    .++++++++||++ .|
T Consensus       106 ~~~~~~~~~~~~~~l~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~e~Sa~~-~~  183 (196)
T 3llu_A          106 QDDYMEALTRLHITVSKAYKV-NPDMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYD-HS  183 (196)
T ss_dssp             TSCCHHHHHHHHHHHHHHHHH-CTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTCTTSCEEEEEECTTS-TH
T ss_pred             CCchHHHHHHHHHHHHHHHhc-CCCCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhhhcCCcceEEEEech-hh
Confidence            997  6777777888777544 36899999999999743       34555566677777    6788999999999 99


Q ss_pred             HHHHHHHHHHHH
Q 030225          142 VNELFYEIAKRL  153 (181)
Q Consensus       142 i~~~~~~l~~~~  153 (181)
                      ++++|+.|++.+
T Consensus       184 v~~~f~~l~~~l  195 (196)
T 3llu_A          184 IFEAFSKVVQKL  195 (196)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999998764

>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=7.6e-28  Score=162.43  Aligned_cols=144  Identities=17%  Similarity=0.158  Sum_probs=107.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh------ccchhhcc--CCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH------SLAPMYYR--GAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~--~~d~~i~v~   72 (181)
                      ||||||||+++|.+..+.....++++.+.....+..++  ..+.+||+||+..+.      .+...++.  ++|++++|+
T Consensus        12 ~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~   89 (165)
T 2wji_A           12 PNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIV   89 (165)
T ss_dssp             TTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT--EEEEEEECCCCSCSSSSSHHHHHHHHHHHHHCCSEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC--cEEEEEECCCcccCCCcchhHHHHHHHHhcCCCCEEEEEe
Confidence            69999999999998776555555555555555555555  478899999987664      23355654  899999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      |+++.+.   ...|+..+..   .+.|+++++||+|+...+.+.. ++..+++.++++++++||++|+|++++|++|.+.
T Consensus        90 D~~~~~~---~~~~~~~~~~---~~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~SA~~~~~v~~l~~~l~~~  162 (165)
T 2wji_A           90 DATALER---NLYLTLQLME---MGANLLLALNKMDLAKSLGIEI-DVDKLEKILGVKVVPLSAAKKMGIEELKKAISIA  162 (165)
T ss_dssp             ETTCHHH---HHHHHHHHHH---TTCCEEEEEECHHHHHHTTCCC-CHHHHHHHHTSCEEECBGGGTBSHHHHHHHHHHH
T ss_pred             cCCchhH---hHHHHHHHHh---cCCCEEEEEEchHhccccChhh-HHHHHHHHhCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            9998654   3457666654   3689999999999865544443 3567788889999999999999999999999876


Q ss_pred             H
Q 030225          153 L  153 (181)
Q Consensus       153 ~  153 (181)
                      +
T Consensus       163 ~  163 (165)
T 2wji_A          163 V  163 (165)
T ss_dssp             T
T ss_pred             h
Confidence            5

>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=2.7e-29  Score=180.72  Aligned_cols=151  Identities=25%  Similarity=0.321  Sum_probs=112.9

Q ss_pred             CCchhHHHHHHhh---CCCCCccccce-eeeEEEEE--------------EEECCeEEEEEEEe----------------
Q 030225            2 GTGKTSLVLRFVK---GQFFDFQESTI-GAAFFTQV--------------LSLNEVTIKFDIWD----------------   47 (181)
Q Consensus         2 ~~GKttLl~~l~~---~~~~~~~~~t~-~~~~~~~~--------------~~~~~~~~~~~i~D----------------   47 (181)
                      |||||||+++|.+   ..+...+.+++ +.++....              ..+++..+.+.|||                
T Consensus        38 ~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~l~i~D~~~~~D~~~~~~~~~~  117 (255)
T 3c5h_A           38 GIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVECKMHIVEQTEFIDDQTFQPHRST  117 (255)
T ss_dssp             CCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC---------CEEEEEECCCEETTTCSBTTGG
T ss_pred             CcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCCcEEEEEEEEcccccccccccccccc
Confidence            9999999999998   55666666665 33322211              12456778899999                


Q ss_pred             -------CCChhhhhccchhhcc---------------------CCcEEEEEEECCCh--hHHHHHHHHHHHHHHh-CCC
Q 030225           48 -------TAGQERYHSLAPMYYR---------------------GAAAAVVVYDITSM--DSFERAKKWVQELQRQ-GNP   96 (181)
Q Consensus        48 -------~~G~~~~~~~~~~~~~---------------------~~d~~i~v~d~~~~--~s~~~~~~~~~~~~~~-~~~   96 (181)
                             ++|++.|..++..++.                     ++|++|+|||++++  .+++.+..|+..+... ...
T Consensus       118 ~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~~  197 (255)
T 3c5h_A          118 ALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKT  197 (255)
T ss_dssp             GCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEECBC----CHHHHHHHHHHHHHHHHHT
T ss_pred             ccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEECCCCchhhHHHHHHHHHHHHHHhccC
Confidence                   6666677777777777                     79999999999998  9999999999988765 336


Q ss_pred             CceEEEEEeCCCCcccccCCHHHHHHHHHH-cCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           97 NLIMFLVANKVDLEEKRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        97 ~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.|+++|+||+|+.+.+.+  +++..++.. .+++++++||+++.|++++|++|++.+.
T Consensus       198 ~~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~~l~~~l~  254 (255)
T 3c5h_A          198 KKPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQVVETSARSNVNVDLAFSTLVQLID  254 (255)
T ss_dssp             TCCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             CCCEEEEEEcccccccHHH--HHHHHHHHhcCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            7899999999999654443  466677766 4789999999999999999999998764

>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=3.3e-28  Score=170.62  Aligned_cols=149  Identities=23%  Similarity=0.283  Sum_probs=106.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCe-EEEEEEEeCCChhhhhc-cchhhccCCcEEEEEEECCChh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEV-TIKFDIWDTAGQERYHS-LAPMYYRGAAAAVVVYDITSMD   78 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~-~~~~~i~D~~G~~~~~~-~~~~~~~~~d~~i~v~d~~~~~   78 (181)
                      +|||||||+++|+++.+...+. +++.++..  +.+++. .+.+.+||+||+..+.. ++..+++++|++|+|||+++..
T Consensus        16 ~~~GKTsli~~l~~~~~~~~~~-~~~~~~~~--~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i~v~d~~~~~   92 (214)
T 2fh5_B           16 CDSGKTLLFVRLLTGQYRDTQT-SITDSSAI--YKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQ   92 (214)
T ss_dssp             TTSSHHHHHHHHHHSCCCCBCC-CCSCEEEE--EECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHH
T ss_pred             CCCCHHHHHHHHhCCCcccccC-CcceeeEE--EEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCEEEEEEECCCcC
Confidence            6999999999999998877764 44444433  555543 57899999999999887 7888999999999999999854


Q ss_pred             -HHHHHHHHHHHHHHh---CCCCceEEEEEeCCCCcccccCCH--HHHHHHHH---------------------------
Q 030225           79 -SFERAKKWVQELQRQ---GNPNLIMFLVANKVDLEEKRKVKN--EEGELYAQ---------------------------  125 (181)
Q Consensus        79 -s~~~~~~~~~~~~~~---~~~~~p~ivi~nK~D~~~~~~~~~--~~~~~~~~---------------------------  125 (181)
                       ++.....|+..+...   ...+.|+++++||+|+........  +.......                           
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~s~~~~~~~~~~~~~~~~  172 (214)
T 2fh5_B           93 REVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQLGKKG  172 (214)
T ss_dssp             HHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHCC------------CCCSSCTT
T ss_pred             HHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHHHHHHHHHHHHHHHhccchhccccccCCccccccccCCC
Confidence             466655544444322   235789999999999965432110  11111111                           


Q ss_pred             ------Hc--CCeEEEEecCCC------CCHHHHHHHHHHH
Q 030225          126 ------EN--GLSFLETSAKSA------HNVNELFYEIAKR  152 (181)
Q Consensus       126 ------~~--~~~~~~~Sa~~~------~gi~~~~~~l~~~  152 (181)
                            ..  +++|+++||++|      .||+++|++|.+.
T Consensus       173 ~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          173 KEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             SCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             CCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence                  11  567999999999      9999999999875

>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=1.9e-28  Score=182.12  Aligned_cols=149  Identities=19%  Similarity=0.303  Sum_probs=111.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+.... +|++..+.  .+..  ..+.+.||||||++.+..++..+++++|++|+|||++++.++
T Consensus       174 ~~vGKSsLl~~l~~~~~~~~~-pT~~~~~~--~~~~--~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vilV~D~~~~~s~  248 (329)
T 3o47_A          174 DAAGKTTILYKLKLGEIVTTI-PTIGFNVE--TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERV  248 (329)
T ss_dssp             TTSSHHHHHHHTCSSCCEEEE-EETTEEEE--EEEE--TTEEEEEEECC-----CCSHHHHHTTEEEEEEEEETTCSSSH
T ss_pred             CCccHHHHHHHHhCCCCCCcc-cccceEEE--EEec--CcEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCchHHH
Confidence            699999999999988876543 66664443  2333  446789999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHH-----HHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYA-----QENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      ..+..|+..+.... ..++|+++|+||+|+.+...  .++.....     ...+++++++||++|.||+++|++|++.+.
T Consensus       249 ~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~el~~~l~~~l~  326 (329)
T 3o47_A          249 NEAREELMRMLAEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLR  326 (329)
T ss_dssp             HHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTCTTCCSSCEEEEECBTTTTBTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhhhccCCCeEEEEEECccCCcccC--HHHHHHHhchhhhhcCCCEEEEEECCCCcCHHHHHHHHHHHHH
Confidence            99988887776532 36899999999999865332  22222221     112457999999999999999999999876


Q ss_pred             hh
Q 030225          155 EV  156 (181)
Q Consensus       155 ~~  156 (181)
                      ++
T Consensus       327 ~~  328 (329)
T 3o47_A          327 NQ  328 (329)
T ss_dssp             C-
T ss_pred             hc
Confidence            54

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.95  E-value=4.9e-27  Score=159.88  Aligned_cols=147  Identities=17%  Similarity=0.171  Sum_probs=112.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCCh---
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSM---   77 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~---   77 (181)
                      +|||||||+++|.+..+...+.++++.++....+..++.  .+.+||+||++.+..++..++..+|++++|+|++++   
T Consensus        17 ~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~   94 (178)
T 2lkc_A           17 VDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDK--KITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMP   94 (178)
T ss_dssp             TTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETTE--EEEESCCCSSSSSSCSCCSSCCCCCEEEEEEETTCCCCH
T ss_pred             CCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCCc--eEEEEECCCCHHHHHHHHHHHhhCCEEEEEEECCCCCcH
Confidence            699999999999999888777777766666666667765  467999999999999999999999999999999883   


Q ss_pred             hHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC---------CeEEEEecCCCCCHHHHHHH
Q 030225           78 DSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG---------LSFLETSAKSAHNVNELFYE  148 (181)
Q Consensus        78 ~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~Sa~~~~gi~~~~~~  148 (181)
                      .+++.+    ..+   ...+.|+++++||+|+.+.   ..++........+         ++++++||++|.|++++|++
T Consensus        95 ~~~~~l----~~~---~~~~~p~ilv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~  164 (178)
T 2lkc_A           95 QTVEAI----NHA---KAANVPIIVAINKMDKPEA---NPDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKEGLDHLLEM  164 (178)
T ss_dssp             HHHHHH----HHH---GGGSCCEEEEEETTTSSCS---CHHHHHHHHTTTTCCBTTTTSSEEEEECCSSSSHHHHHHHHH
T ss_pred             HHHHHH----HHH---HhCCCCEEEEEECccCCcC---CHHHHHHHHHhcCcChhHcCCcccEEEEecCCCCCHHHHHHH
Confidence            333322    222   2247899999999998652   2233333332222         47999999999999999999


Q ss_pred             HHHHHHhhCCC
Q 030225          149 IAKRLAEVNPS  159 (181)
Q Consensus       149 l~~~~~~~~~~  159 (181)
                      |++.+...+.+
T Consensus       165 l~~~~~~~~~~  175 (178)
T 2lkc_A          165 ILLVSEMEELK  175 (178)
T ss_dssp             HHHHHHHTTTT
T ss_pred             HHHhhhhhccc
Confidence            99988776543

>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=99.94  E-value=2.7e-26  Score=162.50  Aligned_cols=154  Identities=13%  Similarity=0.077  Sum_probs=108.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh------h----hhccchhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE------R----YHSLAPMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~------~----~~~~~~~~~~~~d~~i~   70 (181)
                      +|||||||+++|++..+.....+..+.+.........+  ..+.+||+||..      .    +.. +..++..+|++|+
T Consensus        38 ~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~-~~~~~~~~d~~i~  114 (228)
T 2qu8_A           38 PNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKL--NKYQIIDTPGLLDRAFENRNTIEMTT-ITALAHINGVILF  114 (228)
T ss_dssp             TTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEETT--EEEEEEECTTTTTSCGGGCCHHHHHH-HHHHHTSSEEEEE
T ss_pred             CCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecCC--CeEEEEECCCCcCcccchhhhHHHHH-HHHhhccccEEEE
Confidence            69999999999999877533222222233333333333  578899999983      2    222 2345788999999


Q ss_pred             EEECCChhHHH--HHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHH---HHHHHHHHcC--CeEEEEecCCCCCHH
Q 030225           71 VYDITSMDSFE--RAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNE---EGELYAQENG--LSFLETSAKSAHNVN  143 (181)
Q Consensus        71 v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~---~~~~~~~~~~--~~~~~~Sa~~~~gi~  143 (181)
                      |||++++.++.  ....|+..+... ..+.|+++|+||+|+.+.+++...   ....++...+  ++++++||++|+|++
T Consensus       115 v~d~~~~~s~~~~~~~~~~~~l~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gi~  193 (228)
T 2qu8_A          115 IIDISEQCGLTIKEQINLFYSIKSV-FSNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSFSTLTGVGVE  193 (228)
T ss_dssp             EEETTCTTSSCHHHHHHHHHHHHTC-C-CCCEEEEEECGGGCC--CCCHHHHHHHHHHHHHCCSCEEEEECCTTTCTTHH
T ss_pred             EEecccccCcchHHHHHHHHHHHHh-hcCCcEEEEEeCcccCCchhhHHHHHHHHHHHHHhcCCCceEEEEecccCCCHH
Confidence            99999987764  234566655443 247899999999999776666554   4556666676  899999999999999


Q ss_pred             HHHHHHHHHHHhhCC
Q 030225          144 ELFYEIAKRLAEVNP  158 (181)
Q Consensus       144 ~~~~~l~~~~~~~~~  158 (181)
                      ++|++|++.+.+.+.
T Consensus       194 ~l~~~l~~~i~~~~~  208 (228)
T 2qu8_A          194 QAKITACELLKNDQA  208 (228)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999877643

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.94  E-value=4.5e-28  Score=177.73  Aligned_cols=149  Identities=21%  Similarity=0.250  Sum_probs=112.9

Q ss_pred             CCCchhHHHHHHhhCCCCC---ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc---cchhhccCCcEEEEEEEC
Q 030225            1 MGTGKTSLVLRFVKGQFFD---FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS---LAPMYYRGAAAAVVVYDI   74 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---~~~~~~~~~d~~i~v~d~   74 (181)
                      +|||||||++++.++-...   .+.+|+|.++..    ++ ..+++++|||+|+++|+.   .+..|+++++++|+|||+
T Consensus         8 sgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~----v~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~~IlV~Di   82 (331)
T 3r7w_B            8 RRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH----FS-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGALVYVIDS   82 (331)
T ss_dssp             TTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE----EC-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSEEEEECCC
T ss_pred             CCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE----Ec-cEEEEEEEECCCchhccchhhhhhhhccCCCEEEEEEEC
Confidence            5899999999887654332   356788876643    22 347899999999999864   368899999999999999


Q ss_pred             CCh--hHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccc-------ccCCHHHHHHHHHH----cCCeEEEEecCCCCC
Q 030225           75 TSM--DSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEK-------RKVKNEEGELYAQE----NGLSFLETSAKSAHN  141 (181)
Q Consensus        75 ~~~--~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~-------~~~~~~~~~~~~~~----~~~~~~~~Sa~~~~g  141 (181)
                      +++  +.+..+..|+..+... .++.|+++++||+|+...       +++..+++.++++.    ++++++++||++ .+
T Consensus        83 td~~~~~~~~l~~~l~~~~~~-~~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~eTSAkd-~n  160 (331)
T 3r7w_B           83 QDEYINAITNLAMIIEYAYKV-NPSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIFD-HS  160 (331)
T ss_dssp             SSCTTHHHHHHHHHHHHHHHH-CTTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEECCCSSS-SH
T ss_pred             CchHHHHHHHHHHHHHHHhhc-CCCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEEeccCC-Cc
Confidence            987  3333344445555444 368999999999999653       35666667777775    678999999998 58


Q ss_pred             HHHHHHHHHHHHHhh
Q 030225          142 VNELFYEIAKRLAEV  156 (181)
Q Consensus       142 i~~~~~~l~~~~~~~  156 (181)
                      |.++|..+++.+..+
T Consensus       161 V~eAFs~iv~~li~~  175 (331)
T 3r7w_B          161 IYEAFSRIVQKLIPE  175 (331)
T ss_dssp             HHHHHHHHHTTSSTT
T ss_pred             HHHHHHHHHHHHHhh
Confidence            999999998876654

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.94  E-value=1.2e-26  Score=171.02  Aligned_cols=150  Identities=19%  Similarity=0.295  Sum_probs=118.1

Q ss_pred             CCCchhHHHHHHhhCCC--C-CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhh-----hccchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQF--F-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY-----HSLAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~--~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-----~~~~~~~~~~~d~~i~v~   72 (181)
                      ||||||||+++|+++..  . ..+.+|++..+..  ..+++ .+.+.+||+||++.+     ...+..+++++|++|+||
T Consensus        12 ~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~--~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~ad~vi~V~   88 (307)
T 3r7w_A           12 SGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSH--LRFLG-NMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVF   88 (307)
T ss_dssp             TTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEE--EEETT-TEEEEEEEECCSHHHHHHHHTTTHHHHHTTCSEEEEEE
T ss_pred             CCCCHHHHHHHHHhCCCCccccCcCCccceEEEE--EEeCC-ceEEEEEECCCcHHHhhhhhhhHHHHHhccCCEEEEEE
Confidence            79999999999998732  2 2445666655543  33444 578999999999988     778889999999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHh--CCCCceEEEEEeCCCCcc--ccc----CCHHHHHHHHHHcC---CeEEEEecCCCCC
Q 030225           73 DITSMDSFERAKKWVQELQRQ--GNPNLIMFLVANKVDLEE--KRK----VKNEEGELYAQENG---LSFLETSAKSAHN  141 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~--~~~~~p~ivi~nK~D~~~--~~~----~~~~~~~~~~~~~~---~~~~~~Sa~~~~g  141 (181)
                      |++++++++.+..|...+...  ..+++|+++++||+|+.+  .+.    +..+++..+++.+|   ++++++||++ .|
T Consensus        89 D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~~~~~tSa~~-~~  167 (307)
T 3r7w_A           89 DVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWD-ES  167 (307)
T ss_dssp             ETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSCEEEECCTTS-SH
T ss_pred             ECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCeEEEEeeecC-Ch
Confidence            999999999987775554332  136899999999999865  343    55577888888887   7899999999 89


Q ss_pred             HHHHHHHHHHHHH
Q 030225          142 VNELFYEIAKRLA  154 (181)
Q Consensus       142 i~~~~~~l~~~~~  154 (181)
                      +.++|..+++.+.
T Consensus       168 i~e~~~~iv~~li  180 (307)
T 3r7w_A          168 LYKAWSQIVCSLI  180 (307)
T ss_dssp             HHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHc
Confidence            9999998877543

>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=4.5e-27  Score=161.66  Aligned_cols=149  Identities=19%  Similarity=0.224  Sum_probs=111.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCC-----------hhhhhccchhhccC-CcEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAG-----------QERYHSLAPMYYRG-AAAA   68 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G-----------~~~~~~~~~~~~~~-~d~~   68 (181)
                      +|||||||+++|.+..+...+.++++...  ..+...    .+.+||+||           ++.+..++..++++ ++++
T Consensus        10 ~~~GKSsli~~l~~~~~~~~~~~~~t~~~--~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (190)
T 2cxx_A           10 SNVGKSTLIYRLTGKKVRRGKRPGVTRKI--IEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNI   83 (190)
T ss_dssp             TTSSHHHHHHHHHSCCCSSSSSTTCTTSC--EEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGC
T ss_pred             CCCCHHHHHHHHhCcCCccCCCCCcccee--EEEecC----CEEEEECCCccccccCCHHHHHHHHHHHHHHHHhhhccC
Confidence            69999999999999988776666554333  333333    578999999           67777777878877 7777


Q ss_pred             EEEEECCChhHHHHH-HHHHHH--------H-HHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCe-------E
Q 030225           69 VVVYDITSMDSFERA-KKWVQE--------L-QRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLS-------F  131 (181)
Q Consensus        69 i~v~d~~~~~s~~~~-~~~~~~--------~-~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~-------~  131 (181)
                      ++|+++.|..++..+ ..|...        + ......+.|+++++||+|+....   .++...+++.++++       +
T Consensus        84 ~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~  160 (190)
T 2cxx_A           84 DVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV---QEVINFLAEKFEVPLSEIDKVF  160 (190)
T ss_dssp             CEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH---HHHHHHHHHHHTCCGGGHHHHE
T ss_pred             CEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH---HHHHHHHHHHhhhhhhccCCcE
Confidence            777777777777775 556542        1 11222578999999999986544   55677788888864       7


Q ss_pred             EEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225          132 LETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus       132 ~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +++||++|+|++++|++|.+.+.+.+.
T Consensus       161 ~~~Sa~~~~~v~~l~~~l~~~~~~~~~  187 (190)
T 2cxx_A          161 IPISAKFGDNIERLKNRIFEVIRERQG  187 (190)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHHC--
T ss_pred             EEEecCCCCCHHHHHHHHHHhcchhhc
Confidence            999999999999999999999877654

>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=9.3e-27  Score=160.82  Aligned_cols=147  Identities=16%  Similarity=0.199  Sum_probs=100.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCC----------hhhhhccchhhccCC---cE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAG----------QERYHSLAPMYYRGA---AA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~~~~~~~---d~   67 (181)
                      +|||||||+++|++..+...+.++.+.++.......++   ++.+||+||          ++.+..++..+++.+   |+
T Consensus        32 ~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (195)
T 1svi_A           32 SNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKA  108 (195)
T ss_dssp             TTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEE
T ss_pred             CCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHHHHHHHHHHHhhhhcCCE
Confidence            69999999999999887666667777666655555554   578999999          777777788887777   99


Q ss_pred             EEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCH--HHHHH-HHHHcCCeEEEEecCCCCCHHH
Q 030225           68 AVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKN--EEGEL-YAQENGLSFLETSAKSAHNVNE  144 (181)
Q Consensus        68 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~--~~~~~-~~~~~~~~~~~~Sa~~~~gi~~  144 (181)
                      +++|+|++++.++.... ++..+..   .+.|+++++||+|+.+..++..  ++..+ +....+++++++||+++.|+++
T Consensus       109 ~i~v~d~~~~~~~~~~~-~~~~~~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~  184 (195)
T 1svi_A          109 VVQIVDLRHAPSNDDVQ-MYEFLKY---YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDE  184 (195)
T ss_dssp             EEEEEETTSCCCHHHHH-HHHHHHH---TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSEEEECCTTTCTTHHH
T ss_pred             EEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChHHHHHHHHHHHHHHcccCCCceEEEEccCCCCHHH
Confidence            99999999876665532 2222222   4689999999999976444322  22222 2222357999999999999999


Q ss_pred             HHHHHHHHHH
Q 030225          145 LFYEIAKRLA  154 (181)
Q Consensus       145 ~~~~l~~~~~  154 (181)
                      +|++|.+.+.
T Consensus       185 l~~~l~~~l~  194 (195)
T 1svi_A          185 AWGAIKKMIN  194 (195)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHhc
Confidence            9999988764

>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=1.3e-26  Score=159.27  Aligned_cols=149  Identities=17%  Similarity=0.167  Sum_probs=114.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh------ccchhhcc--CCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH------SLAPMYYR--GAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~--~~d~~i~v~   72 (181)
                      +|||||||+++|.+..+.....++++.+.....+..++  ..+.+||+||+..+.      .++..++.  .+|++++|+
T Consensus        16 ~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~   93 (188)
T 2wjg_A           16 PNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIV   93 (188)
T ss_dssp             TTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSCCSSSSHHHHHHHHHHHHHCCSEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC--cEEEEEECCCcCccccccHHHHHHHHHHhccCCCEEEEEe
Confidence            69999999999998776555556666666555666655  578899999987664      34555654  599999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      |.++   ++....|+..+..   .+.|+++++||+|+.....+. .+...+++.++++++++||+++.|++++|++|++.
T Consensus        94 d~~~---~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~  166 (188)
T 2wjg_A           94 DATA---LERNLYLTLQLME---MGANLLLALNKMDLAKSLGIE-IDVDKLEKILGVKVVPLSAAKKMGIEELKKAISIA  166 (188)
T ss_dssp             EGGG---HHHHHHHHHHHHT---TTCCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBGGGTBSHHHHHHHHHHH
T ss_pred             cchh---HHHHHHHHHHHHh---cCCCEEEEEEhhhccccccch-HHHHHHHHHhCCCeEEEEecCCCCHHHHHHHHHHH
Confidence            9875   4555667776654   468999999999987655444 35677788889999999999999999999999998


Q ss_pred             HHhhCC
Q 030225          153 LAEVNP  158 (181)
Q Consensus       153 ~~~~~~  158 (181)
                      +.+...
T Consensus       167 ~~~~~~  172 (188)
T 2wjg_A          167 VKDKKT  172 (188)
T ss_dssp             HTTC--
T ss_pred             HHhccC
Confidence            877653

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.94  E-value=2.2e-27  Score=186.78  Aligned_cols=154  Identities=18%  Similarity=0.254  Sum_probs=116.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEE--------EECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVL--------SLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~--------~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   72 (181)
                      ||||||||+++|.+..+...+.+|++.++.....        ..++..+.+.+||+||++.+..++..+++.+|++|+|+
T Consensus        50 ~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~~~l~~~d~ii~V~  129 (535)
T 3dpu_A           50 GMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLL  129 (535)
T ss_dssp             SCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCHHHHHSSEEEEEEE
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHHHHccCCcEEEEEE
Confidence            7999999999999999888888999887765421        22334578999999999999999999999999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      |+++.   +.+..|+..+.... ++.|+++|+||+|+.+...+..++...++...+++++++||++|.|+++++++|.+.
T Consensus       130 D~s~~---~~~~~~~~~l~~~~-~~~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gi~eL~~~l~~~  205 (535)
T 3dpu_A          130 DSRTD---SNKHYWLRHIEKYG-GKSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKSA  205 (535)
T ss_dssp             CGGGG---GGHHHHHHHHHHHS-SSCCEEEEECCTTTCTTCCCCHHHHHHHCGGGTTCEEECCC-----CTTHHHHHHHH
T ss_pred             eCCCc---hhHHHHHHHHHHhC-CCCCEEEEEECCCcccccccCHHHHHHHHHhcCCceEEEecCcccCHHHHHHHHHHH
Confidence            99865   44567888887764 578999999999998777878888888888889999999999999999999999998


Q ss_pred             HHhhCC
Q 030225          153 LAEVNP  158 (181)
Q Consensus       153 ~~~~~~  158 (181)
                      +.+...
T Consensus       206 ~~~~~~  211 (535)
T 3dpu_A          206 VLHPDS  211 (535)
T ss_dssp             HTCTTS
T ss_pred             Hhcccc
Confidence            876543

>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=3e-26  Score=168.90  Aligned_cols=154  Identities=18%  Similarity=0.113  Sum_probs=115.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCe-EEEEEEEeCCChhhhh----------ccchhhccCCcEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEV-TIKFDIWDTAGQERYH----------SLAPMYYRGAAAAV   69 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~-~~~~~i~D~~G~~~~~----------~~~~~~~~~~d~~i   69 (181)
                      ||||||||+|+|++..+.... +..++++.......... ..++.+|||||...+.          .....++.++|+++
T Consensus        19 ~nvGKSTLin~l~g~~~~i~s-~~~~tT~~~~~~~~~~~~~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~aD~il   97 (308)
T 3iev_A           19 PNVGKSTLLNNLLGTKVSIIS-PKAGTTRMRVLGVKNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEADVIL   97 (308)
T ss_dssp             TTSSHHHHHHHHHTSCCSCCC-SSSCCCCSCEEEEEEETTTEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHCSEEE
T ss_pred             CCCcHHHHHHHHhCCCccccC-CCCCceeeEEEEEEecCCCCeEEEEECcCCCccccchhHHHHHHHHHHHHhhcCCEEE
Confidence            799999999999998875432 22222222222222222 4678899999985433          45567789999999


Q ss_pred             EEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC--CeEEEEecCCCCCHHHHHH
Q 030225           70 VVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG--LSFLETSAKSAHNVNELFY  147 (181)
Q Consensus        70 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~~~~  147 (181)
                      +|+|++++.+......|+..+..   .+.|+++++||+|+.............+.+.++  .+++++||++|.|++++|+
T Consensus        98 ~VvD~~~~~~~~~~~~~~~~l~~---~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~~vSA~~g~gv~~L~~  174 (308)
T 3iev_A           98 FMIDATEGWRPRDEEIYQNFIKP---LNKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVPISALKGANLDELVK  174 (308)
T ss_dssp             EEEETTTBSCHHHHHHHHHHTGG---GCCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEEECBTTTTBSHHHHHH
T ss_pred             EEEeCCCCCCchhHHHHHHHHHh---cCCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEEEEeCCCCCCHHHHHH
Confidence            99999998888877777777755   368999999999997445555666777777775  7899999999999999999


Q ss_pred             HHHHHHHhhCC
Q 030225          148 EIAKRLAEVNP  158 (181)
Q Consensus       148 ~l~~~~~~~~~  158 (181)
                      +|.+.+.+..+
T Consensus       175 ~l~~~l~~~~~  185 (308)
T 3iev_A          175 TILKYLPEGEP  185 (308)
T ss_dssp             HHHHHSCBCCC
T ss_pred             HHHHhCccCCC
Confidence            99998866543

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.93  E-value=4e-26  Score=152.90  Aligned_cols=142  Identities=22%  Similarity=0.148  Sum_probs=98.2

Q ss_pred             CCCchhHHHHHHhhCCCCC-ccccceeeeEEEEEEEECCeEEEEEEEeCCChhh-------hhccchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFD-FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER-------YHSLAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d~~i~v~   72 (181)
                      +|||||||+++|.+..+.. ...++++.+.....+..++.  .+.+||+||...       +...+..+++.+|++++|+
T Consensus        10 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~i~v~   87 (161)
T 2dyk_A           10 PNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRG--RFLLVDTGGLWSGDKWEKKIQEKVDRALEDAEVVLFAV   87 (161)
T ss_dssp             TTSSHHHHHHHHHHCCC-----------CCEEEEEEETTE--EEEEEECGGGCSSSSCCHHHHHHHHHHTTTCSEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCCc--eEEEEECCCCCCccchHHHHHHHHHHHHHhCCEEEEEE
Confidence            6899999999999887532 22233344444555556654  678999999876       3445567889999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      |++++.+..  ..|+..+...  .+.|+++++||+|+.+..    +++..++ ..++ +++++||+++.|++++|++|++
T Consensus        88 d~~~~~~~~--~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~----~~~~~~~-~~~~~~~~~~Sa~~~~gv~~l~~~l~~  158 (161)
T 2dyk_A           88 DGRAELTQA--DYEVAEYLRR--KGKPVILVATKVDDPKHE----LYLGPLY-GLGFGDPIPTSSEHARGLEELLEAIWE  158 (161)
T ss_dssp             ESSSCCCHH--HHHHHHHHHH--HTCCEEEEEECCCSGGGG----GGCGGGG-GGSSCSCEECBTTTTBSHHHHHHHHHH
T ss_pred             ECCCcccHh--HHHHHHHHHh--cCCCEEEEEECcccccch----HhHHHHH-hCCCCCeEEEecccCCChHHHHHHHHH
Confidence            999753322  2233333222  468999999999996642    2333444 5677 8999999999999999999987


Q ss_pred             HH
Q 030225          152 RL  153 (181)
Q Consensus       152 ~~  153 (181)
                      .+
T Consensus       159 ~l  160 (161)
T 2dyk_A          159 RL  160 (161)
T ss_dssp             HC
T ss_pred             hC
Confidence            64

>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=2.1e-25  Score=160.51  Aligned_cols=146  Identities=16%  Similarity=0.132  Sum_probs=110.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhcc------chhhc--cCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSL------APMYY--RGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~--~~~d~~i~v~   72 (181)
                      ||||||||+++|.+..+.....+.++.+.....+...+  ..+.+||+||...+...      ...++  ..+|++++|+
T Consensus        14 ~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~ii~V~   91 (258)
T 3a1s_A           14 PNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKG--YTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLVILVA   91 (258)
T ss_dssp             TTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSSCCSSSHHHHHHHHHHHHSCCSEEEEEE
T ss_pred             CCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECC--eEEEEEECCCcCccCCCCHHHHHHHHHHhhcCCCEEEEEe
Confidence            79999999999998776544445444444444444433  67889999998776543      24555  5899999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      |+++.++..   .|...+..   .+.|+++++||+|+.+.+.+.. +...+++.++++++++||++|.|++++|++|.+.
T Consensus        92 D~t~~~~~~---~~~~~l~~---~~~pvilv~NK~Dl~~~~~i~~-~~~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~  164 (258)
T 3a1s_A           92 DSVNPEQSL---YLLLEILE---MEKKVILAMTAIDEAKKTGMKI-DRYELQKHLGIPVVFTSSVTGEGLEELKEKIVEY  164 (258)
T ss_dssp             ETTSCHHHH---HHHHHHHT---TTCCEEEEEECHHHHHHTTCCB-CHHHHHHHHCSCEEECCTTTCTTHHHHHHHHHHH
T ss_pred             CCCchhhHH---HHHHHHHh---cCCCEEEEEECcCCCCccchHH-HHHHHHHHcCCCEEEEEeeCCcCHHHHHHHHHHH
Confidence            999876543   35555544   3689999999999876555443 3677788889999999999999999999999997


Q ss_pred             HHh
Q 030225          153 LAE  155 (181)
Q Consensus       153 ~~~  155 (181)
                      +..
T Consensus       165 ~~~  167 (258)
T 3a1s_A          165 AQK  167 (258)
T ss_dssp             HHS
T ss_pred             hhc
Confidence            653

>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=5.2e-26  Score=154.47  Aligned_cols=145  Identities=18%  Similarity=0.193  Sum_probs=104.4

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc------c--chhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS------L--APMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~--~~~~~~~~d~~i~v   71 (181)
                      ||||||||+++|.+.... ....++++.++....+.+++.  .+.+||+||...+..      +  ...+++++|++++|
T Consensus        13 ~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~ad~~i~v   90 (172)
T 2gj8_A           13 PNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGM--PLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFM   90 (172)
T ss_dssp             TTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTE--EEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEE
T ss_pred             CCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECCe--EEEEEECCCcccchhHHHHHHHHHHHHHHHhCCEEEEE
Confidence            799999999999987642 122244445555566667764  477999999754221      1  12357899999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           72 YDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +|++++.+++ ...|+..+......++|+++++||+|+.+...       .++...+.+++++||+++.|++++|++|.+
T Consensus        91 ~D~~~~~s~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~-------~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~  162 (172)
T 2gj8_A           91 VDGTTTDAVD-PAEIWPEFIARLPAKLPITVVRNKADITGETL-------GMSEVNGHALIRLSARTGEGVDVLRNHLKQ  162 (172)
T ss_dssp             EETTTCCCCS-HHHHCHHHHHHSCTTCCEEEEEECHHHHCCCC-------EEEEETTEEEEECCTTTCTTHHHHHHHHHH
T ss_pred             EECCCCCCHH-HHHHHHHHHHhcccCCCEEEEEECccCCcchh-------hhhhccCCceEEEeCCCCCCHHHHHHHHHH
Confidence            9999988765 45677777766556799999999999853211       111224678999999999999999999988


Q ss_pred             HHHh
Q 030225          152 RLAE  155 (181)
Q Consensus       152 ~~~~  155 (181)
                      .+..
T Consensus       163 ~~~~  166 (172)
T 2gj8_A          163 SMGF  166 (172)
T ss_dssp             HC--
T ss_pred             Hhhh
Confidence            7643

>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=99.93  E-value=7.7e-26  Score=162.55  Aligned_cols=143  Identities=15%  Similarity=0.074  Sum_probs=109.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc----------cchhhc--cCCcEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS----------LAPMYY--RGAAAA   68 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----------~~~~~~--~~~d~~   68 (181)
                      ||||||||+|+|.+........++++.+.....+..++.  .+.+||+||...+..          +...++  .++|++
T Consensus        10 ~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~--~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~v   87 (256)
T 3iby_A           10 PNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEH--LIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEYDCI   87 (256)
T ss_dssp             TTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTE--EEEEEECCCCSSCC------CHHHHHHHHHHHHSCCSEE
T ss_pred             CCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCe--EEEEEeCCCcccccccccCCCHHHHHHHHHHhhCCCCEE
Confidence            799999999999998765555566666666666666665  778999999876653          455666  899999


Q ss_pred             EEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHH
Q 030225           69 VVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYE  148 (181)
Q Consensus        69 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~  148 (181)
                      |+|+|+++.++...+..++.      ..+.|+++++||+|+........ ....+.+..+++++++||++|.|++++|++
T Consensus        88 i~VvDas~~~~~~~l~~~l~------~~~~pvilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~vi~~SA~~g~gi~el~~~  160 (256)
T 3iby_A           88 INVIDACHLERHLYLTSQLF------ELGKPVVVALNMMDIAEHRGISI-DTEKLESLLGCSVIPIQAHKNIGIPALQQS  160 (256)
T ss_dssp             EEEEEGGGHHHHHHHHHHHT------TSCSCEEEEEECHHHHHHTTCEE-CHHHHHHHHCSCEEECBGGGTBSHHHHHHH
T ss_pred             EEEeeCCCchhHHHHHHHHH------HcCCCEEEEEEChhcCCcCCcHH-HHHHHHHHcCCCEEEEECCCCCCHHHHHHH
Confidence            99999998766554433322      23789999999999865443322 244567778999999999999999999999


Q ss_pred             HHHH
Q 030225          149 IAKR  152 (181)
Q Consensus       149 l~~~  152 (181)
                      |.+.
T Consensus       161 i~~~  164 (256)
T 3iby_A          161 LLHC  164 (256)
T ss_dssp             HHTC
T ss_pred             HHhh
Confidence            9886

>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=99.93  E-value=6e-26  Score=164.29  Aligned_cols=145  Identities=17%  Similarity=0.132  Sum_probs=108.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh------ccchhhcc--CCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH------SLAPMYYR--GAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~--~~d~~i~v~   72 (181)
                      ||||||||+++|.+........+  |+++......++. ...+.+||+||...+.      .+...++.  ++|++++|+
T Consensus        12 ~nvGKSTL~n~L~g~~~~v~~~p--g~tv~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~vi~V~   88 (272)
T 3b1v_A           12 PNSGKTSLFNLITGHNQRVGNWP--GVTVERKSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSILNVV   88 (272)
T ss_dssp             TTSSHHHHHHHHHCCCCCCCSSS--CCCCSCEEEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEEEEEE
T ss_pred             CCCCHHHHHHHHHCCCCcccCCC--CCcEEEEEEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEEEEEe
Confidence            79999999999998764333223  4444444555565 6678999999987765      34455664  699999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      |+++.++.   ..|...+.+   .+.|+++++||+|+.....+. .+...+++.++++++++||++|.|++++|++|.+.
T Consensus        89 D~t~~e~~---~~~~~~l~~---~~~p~ilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~  161 (272)
T 3b1v_A           89 DATNLERN---LYLTTQLIE---TGIPVTIALNMIDVLDGQGKK-INVDKLSYHLGVPVVATSALKQTGVDQVVKKAAHT  161 (272)
T ss_dssp             EGGGHHHH---HHHHHHHHH---TCSCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBTTTTBSHHHHHHHHHHS
T ss_pred             cCCchHhH---HHHHHHHHh---cCCCEEEEEEChhhCCcCCcH-HHHHHHHHHcCCCEEEEEccCCCCHHHHHHHHHHH
Confidence            99986554   345555544   478999999999986554444 34567788889999999999999999999999886


Q ss_pred             HHh
Q 030225          153 LAE  155 (181)
Q Consensus       153 ~~~  155 (181)
                      +..
T Consensus       162 ~~~  164 (272)
T 3b1v_A          162 TTS  164 (272)
T ss_dssp             CTT
T ss_pred             Hhh
Confidence            543

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.92  E-value=5e-25  Score=151.89  Aligned_cols=145  Identities=22%  Similarity=0.286  Sum_probs=105.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCC----------hhhhhccchhhccCC---cE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAG----------QERYHSLAPMYYRGA---AA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~~~~~~~---d~   67 (181)
                      +|||||||+++|++... ..+.++.+.++.......+.   ++.+||+||          ++.+..++..+++.+   |+
T Consensus        32 ~~~GKSsli~~l~~~~~-~~~~~~~~~t~~~~~~~~~~---~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  107 (195)
T 3pqc_A           32 SNVGKSSLLNALFNRKI-AFVSKTPGKTRSINFYLVNS---KYYFVDLPGYGYAKVSKKERMLWKRLVEDYFKNRWSLQM  107 (195)
T ss_dssp             TTSSHHHHHHHHHTSCC-SCCCSSCCCCCCEEEEEETT---TEEEEECCCBSSSCCCHHHHHHHHHHHHHHHHHCTTEEE
T ss_pred             CCCCHHHHHHHHHcCcc-ccccCCCCCccCeEEEEECC---cEEEEECCCCccccCChhhHHHHHHHHHHHHhcCcCceE
Confidence            69999999999998874 33456666655555544443   467999999          667777777777665   99


Q ss_pred             EEEEEECCChhH--HHHHHHHHHHHHHhCCCCceEEEEEeCCCCccc--ccCCHHHHHHHHHHcC-CeEEEEecCCCCCH
Q 030225           68 AVVVYDITSMDS--FERAKKWVQELQRQGNPNLIMFLVANKVDLEEK--RKVKNEEGELYAQENG-LSFLETSAKSAHNV  142 (181)
Q Consensus        68 ~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~--~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi  142 (181)
                      +++|+|+++..+  ...+..|+...      +.|+++|+||+|+.+.  .....++...++...+ ++++++||+++.|+
T Consensus       108 vi~v~d~~~~~~~~~~~~~~~~~~~------~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv  181 (195)
T 3pqc_A          108 VFLLVDGRIPPQDSDLMMVEWMKSL------NIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYGEYTIIPTSSVTGEGI  181 (195)
T ss_dssp             EEEEEETTSCCCHHHHHHHHHHHHT------TCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSCCSCEEECCTTTCTTH
T ss_pred             EEEEecCCCCCCHHHHHHHHHHHHc------CCCEEEEEEChhcCChHHHHHHHHHHHHHHhhcCCCceEEEecCCCCCH
Confidence            999999987533  23333443322      6899999999998643  2333344555565534 79999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 030225          143 NELFYEIAKRLAE  155 (181)
Q Consensus       143 ~~~~~~l~~~~~~  155 (181)
                      +++|++|.+.+.+
T Consensus       182 ~~l~~~l~~~l~~  194 (195)
T 3pqc_A          182 SELLDLISTLLKE  194 (195)
T ss_dssp             HHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHhhc
Confidence            9999999988754

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.91  E-value=6.3e-25  Score=154.73  Aligned_cols=155  Identities=12%  Similarity=0.113  Sum_probs=102.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEEC-CeEEEEEEEeCCCh----------hhhhccchhhccC---Cc
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN-EVTIKFDIWDTAGQ----------ERYHSLAPMYYRG---AA   66 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~----------~~~~~~~~~~~~~---~d   66 (181)
                      +|||||||+++|++........++.+++......... .....+.+|||||.          +.+..+...++..   +|
T Consensus        38 ~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d  117 (223)
T 4dhe_A           38 SNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQTRPQLC  117 (223)
T ss_dssp             CHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHHCTTEE
T ss_pred             CCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhcCcCcC
Confidence            5899999999999987433333444444444454554 44467889999993          4445555566555   78


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCC--HHHHHHHHHH-------cCCeEEEEecC
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK--NEEGELYAQE-------NGLSFLETSAK  137 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~--~~~~~~~~~~-------~~~~~~~~Sa~  137 (181)
                      ++++|+|++++.+. ....|+..+..   .+.|+++|+||+|+....+..  .++.......       .+.+++++||+
T Consensus       118 ~vi~v~d~~~~~~~-~~~~~~~~l~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~SA~  193 (223)
T 4dhe_A          118 GMILMMDARRPLTE-LDRRMIEWFAP---TGKPIHSLLTKCDKLTRQESINALRATQKSLDAYRDAGYAGKLTVQLFSAL  193 (223)
T ss_dssp             EEEEEEETTSCCCH-HHHHHHHHHGG---GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTCCSCEEEEEEBTT
T ss_pred             EEEEEEeCCCCCCH-HHHHHHHHHHh---cCCCEEEEEeccccCChhhHHHHHHHHHHHHHhhhhcccCCCCeEEEeecC
Confidence            89999999874332 22334444433   468999999999986533321  1222223333       45789999999


Q ss_pred             CCCCHHHHHHHHHHHHHhhCCC
Q 030225          138 SAHNVNELFYEIAKRLAEVNPS  159 (181)
Q Consensus       138 ~~~gi~~~~~~l~~~~~~~~~~  159 (181)
                      ++.|++++|++|.+.+.....+
T Consensus       194 ~g~gv~~l~~~l~~~~~~~~~~  215 (223)
T 4dhe_A          194 KRTGLDDAHALIESWLRPAAAD  215 (223)
T ss_dssp             TTBSHHHHHHHHHHHHC-----
T ss_pred             CCcCHHHHHHHHHHhcCccCCc
Confidence            9999999999999988765443

>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=4.6e-24  Score=154.70  Aligned_cols=149  Identities=21%  Similarity=0.141  Sum_probs=113.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc------cchhhc--cCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS------LAPMYY--RGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~--~~~d~~i~v~   72 (181)
                      ||||||||+++|.+..+.....++++.+.....+..++.  .+.+||+||...+..      ....++  .++|++++|+
T Consensus        12 ~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~   89 (271)
T 3k53_A           12 PNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYREK--EFLVVDLPGIYSLTAHSIDELIARNFILDGNADVIVDIV   89 (271)
T ss_dssp             SSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETTE--EEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECCc--eEEEEeCCCccccccCCHHHHHHHHhhhccCCcEEEEEe
Confidence            799999999999998775555566666666666666665  478999999877665      455555  7899999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      |+++.+.   ...|...+...  ...|+++++||+|+.+....... ...+.+.++++++++||++|.|+.++++++.+.
T Consensus        90 D~~~~~~---~~~~~~~~~~~--~~~p~ilv~NK~Dl~~~~~~~~~-~~~l~~~lg~~~~~~Sa~~g~gi~~l~~~i~~~  163 (271)
T 3k53_A           90 DSTCLMR---NLFLTLELFEM--EVKNIILVLNKFDLLKKKGAKID-IKKMRKELGVPVIPTNAKKGEGVEELKRMIALM  163 (271)
T ss_dssp             EGGGHHH---HHHHHHHHHHT--TCCSEEEEEECHHHHHHHTCCCC-HHHHHHHHSSCEEECBGGGTBTHHHHHHHHHHH
T ss_pred             cCCcchh---hHHHHHHHHhc--CCCCEEEEEEChhcCcccccHHH-HHHHHHHcCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            9997542   33444444443  23899999999998654443332 566777889999999999999999999999998


Q ss_pred             HHhhC
Q 030225          153 LAEVN  157 (181)
Q Consensus       153 ~~~~~  157 (181)
                      +....
T Consensus       164 ~~~~~  168 (271)
T 3k53_A          164 AEGKV  168 (271)
T ss_dssp             HHTCC
T ss_pred             Hhccc
Confidence            76554

>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=99.91  E-value=6.2e-25  Score=159.43  Aligned_cols=147  Identities=15%  Similarity=0.135  Sum_probs=107.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc----------cchhhc--cCCcEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS----------LAPMYY--RGAAAA   68 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----------~~~~~~--~~~d~~   68 (181)
                      ||||||||+|+|.+........++++.+.....+...+.  .+.+||+||...+..          .+..++  .++|++
T Consensus        12 ~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~~--~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~i   89 (274)
T 3i8s_A           12 PNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTDH--QVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLL   89 (274)
T ss_dssp             TTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSSC--EEEEEECCCCSCSCC----CCHHHHHHHHHHHHTCCSEE
T ss_pred             CCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCCC--ceEEEECcCCCccccccccCCHHHHHHHHHHhhcCCCEE
Confidence            799999999999998765555555555555555555554  577999999876552          122333  799999


Q ss_pred             EEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHH
Q 030225           69 VVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYE  148 (181)
Q Consensus        69 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~  148 (181)
                      ++|+|+++.+....+..+   +.+.   +.|+++++||+|+.+..... .....+.+..+++++++||++|.|+++++++
T Consensus        90 i~VvD~~~~~~~~~~~~~---l~~~---~~p~ivv~NK~Dl~~~~~~~-~~~~~l~~~lg~~~i~~SA~~g~gi~el~~~  162 (274)
T 3i8s_A           90 INVVDASNLERNLYLTLQ---LLEL---GIPCIVALNMLDIAEKQNIR-IEIDALSARLGCPVIPLVSTRGRGIEALKLA  162 (274)
T ss_dssp             EEEEEGGGHHHHHHHHHH---HHHH---TCCEEEEEECHHHHHHTTEE-ECHHHHHHHHTSCEEECCCGGGHHHHHHHHH
T ss_pred             EEEecCCChHHHHHHHHH---HHhc---CCCEEEEEECccchhhhhHH-HHHHHHHHhcCCCEEEEEcCCCCCHHHHHHH
Confidence            999999987665544443   3333   68999999999986543322 2245667778999999999999999999999


Q ss_pred             HHHHHHhh
Q 030225          149 IAKRLAEV  156 (181)
Q Consensus       149 l~~~~~~~  156 (181)
                      |.+.+.+.
T Consensus       163 i~~~~~~~  170 (274)
T 3i8s_A          163 IDRYKANE  170 (274)
T ss_dssp             HHTCCCCC
T ss_pred             HHHHHhcC
Confidence            98765543

>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=99.90  E-value=2.4e-24  Score=158.03  Aligned_cols=147  Identities=18%  Similarity=0.122  Sum_probs=99.7

Q ss_pred             CCCchhHHHHHHhhCCCCCc-cccceeeeEEEEEEEECCeEEEEEEEeCCChhh--------hhccchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDF-QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER--------YHSLAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~d~~i~v   71 (181)
                      ||||||||+|+|++..+... ..+.++.........  ....++.+|||||...        +......+++++|++++|
T Consensus        16 ~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~--~~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~ad~il~V   93 (301)
T 1wf3_A           16 PNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILT--EGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWV   93 (301)
T ss_dssp             TTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEE--ETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEE
T ss_pred             CCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEE--eCCcEEEEecCccccchhhHHHHHHHHHHHHHHhcCCEEEEE
Confidence            79999999999999887532 222222121111222  2346889999999764        444556788999999999


Q ss_pred             EECCChhHHHHHHHHH-HHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHc-C-CeEEEEecCCCCCHHHHHHH
Q 030225           72 YDITSMDSFERAKKWV-QELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQEN-G-LSFLETSAKSAHNVNELFYE  148 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~-~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~-~-~~~~~~Sa~~~~gi~~~~~~  148 (181)
                      +|++++.+..  ..|+ ..+... .++.|+++++||+|+......    ....++.+ + .+++++||++|.|+++++++
T Consensus        94 vD~~~~~~~~--~~~i~~~l~~~-~~~~p~ilV~NK~Dl~~~~~~----~~~~~~~~~~~~~~~~iSA~~g~gv~~l~~~  166 (301)
T 1wf3_A           94 VDLRHPPTPE--DELVARALKPL-VGKVPILLVGNKLDAAKYPEE----AMKAYHELLPEAEPRMLSALDERQVAELKAD  166 (301)
T ss_dssp             EETTSCCCHH--HHHHHHHHGGG-TTTSCEEEEEECGGGCSSHHH----HHHHHHHTSTTSEEEECCTTCHHHHHHHHHH
T ss_pred             EECCCCCChH--HHHHHHHHHhh-cCCCCEEEEEECcccCCchHH----HHHHHHHhcCcCcEEEEeCCCCCCHHHHHHH
Confidence            9998764433  3444 344333 247899999999998643220    22223332 3 57899999999999999999


Q ss_pred             HHHHHHhh
Q 030225          149 IAKRLAEV  156 (181)
Q Consensus       149 l~~~~~~~  156 (181)
                      |.+.+.+.
T Consensus       167 l~~~l~~~  174 (301)
T 1wf3_A          167 LLALMPEG  174 (301)
T ss_dssp             HHTTCCBC
T ss_pred             HHHhcccC
Confidence            98876544

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.90  E-value=8.7e-24  Score=162.55  Aligned_cols=151  Identities=21%  Similarity=0.145  Sum_probs=105.8

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCCh----------hhhhccch-hhccCCcEE
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ----------ERYHSLAP-MYYRGAAAA   68 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~~-~~~~~~d~~   68 (181)
                      ||||||||+|+|++.... ....++++.+.....+..++.  .+.+|||||+          +.|..+.. .+++.+|++
T Consensus       184 ~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~  261 (436)
T 2hjg_A          184 PNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVV  261 (436)
T ss_dssp             TTSSHHHHHHHHHTSTTEEEC---------CCEEEEETTE--EEEETTHHHHTCBTTBCCCCSHHHHHHHHHHHHHCSEE
T ss_pred             CCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCe--EEEEEECCCcCcCccccchHHHHHHHHHHHHHHhCCEE
Confidence            799999999999987753 222344444444445556665  4789999998          44444433 478889999


Q ss_pred             EEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHH-HH----cCCeEEEEecCCCCCHH
Q 030225           69 VVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYA-QE----NGLSFLETSAKSAHNVN  143 (181)
Q Consensus        69 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~-~~----~~~~~~~~Sa~~~~gi~  143 (181)
                      ++|+|++++.+++.. .|+..+..   .+.|+++++||+|+.+......++..... +.    .+++++++||++|.|++
T Consensus       262 llv~D~~~~~s~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~SA~tg~~v~  337 (436)
T 2hjg_A          262 AVVLDGEEGIIEQDK-RIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKKRIH  337 (436)
T ss_dssp             EEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCEEECCTTTCTTGG
T ss_pred             EEEEcCCcCCcHHHH-HHHHHHHH---cCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCEEEEecccCCCHH
Confidence            999999998777664 46666654   46899999999999765554433333222 22    35799999999999999


Q ss_pred             HHHHHHHHHHHhhC
Q 030225          144 ELFYEIAKRLAEVN  157 (181)
Q Consensus       144 ~~~~~l~~~~~~~~  157 (181)
                      ++|+.+.+.+.+..
T Consensus       338 ~l~~~i~~~~~~~~  351 (436)
T 2hjg_A          338 TLMPAIIKASENHS  351 (436)
T ss_dssp             GHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999998887644

>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=99.90  E-value=7e-25  Score=154.03  Aligned_cols=132  Identities=16%  Similarity=0.172  Sum_probs=97.9

Q ss_pred             CCCchhHHHHHHhhCCCCC---ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC----CcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFD---FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG----AAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~----~d~~i~v~d   73 (181)
                      +|||||||+++|.+..+..   .+.++++.++         ..+.+.+||+||++.++..+..+++.    +|++|+|+|
T Consensus        21 ~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~D   91 (218)
T 1nrj_B           21 QNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVD   91 (218)
T ss_dssp             TTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG---------GGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEE
T ss_pred             CCCCHHHHHHHHhcCCCCCeeeecCceEEEEe---------eCceEEEEECCCcHHHHHHHHHHHHhccccCCEEEEEEE
Confidence            6999999999999987654   2444444332         44578899999999998888888877    899999999


Q ss_pred             CC-ChhHHHHHHHHHHHHHHh----CCCCceEEEEEeCCCCcccccCC------HHHHHHHHHHcCCeEEEEecCCCCC
Q 030225           74 IT-SMDSFERAKKWVQELQRQ----GNPNLIMFLVANKVDLEEKRKVK------NEEGELYAQENGLSFLETSAKSAHN  141 (181)
Q Consensus        74 ~~-~~~s~~~~~~~~~~~~~~----~~~~~p~ivi~nK~D~~~~~~~~------~~~~~~~~~~~~~~~~~~Sa~~~~g  141 (181)
                      ++ +++++..+..|+..+...    ...+.|+++++||+|+.....+.      ..++..++...+++++++||+++.+
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~Sa~~~~~  170 (218)
T 1nrj_B           92 STVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEE  170 (218)
T ss_dssp             TTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHC--------
T ss_pred             CCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHHHHhccccccccccccc
Confidence            99 888999988888887664    34689999999999997654433      3456667777778899999998764

>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=9e-23  Score=153.22  Aligned_cols=151  Identities=17%  Similarity=0.183  Sum_probs=110.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc---------cchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS---------LAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---------~~~~~~~~~d~~i~v   71 (181)
                      ||||||||+++|.+........+..+.......+...  ...+.+|||||......         ....+...+|++++|
T Consensus       176 ~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~illV  253 (357)
T 2e87_A          176 PNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDG--YFRYQIIDTPGLLDRPISERNEIEKQAILALRYLGNLIIYI  253 (357)
T ss_dssp             TTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEET--TEEEEEEECTTTSSSCSTTSCHHHHHHHHGGGGTCSEEEEE
T ss_pred             CCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEec--CceEEEEeCCCccccchhhhhHHHHHHHHHHHhcCCEEEEE
Confidence            7999999999999876432222222222323333333  35688999999753211         112344579999999


Q ss_pred             EECCChh--HHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHH
Q 030225           72 YDITSMD--SFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        72 ~d~~~~~--s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l  149 (181)
                      +|++++.  +++....|+..+.... .+.|+++++||+|+.....+  ++...++...+++++++||++|+|+++++++|
T Consensus       254 ~D~s~~~~~~~~~~~~~~~~i~~~~-~~~piilV~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~iSA~~g~gi~~l~~~i  330 (357)
T 2e87_A          254 FDPSEHCGFPLEEQIHLFEEVHGEF-KDLPFLVVINKIDVADEENI--KRLEKFVKEKGLNPIKISALKGTGIDLVKEEI  330 (357)
T ss_dssp             ECTTCTTSSCHHHHHHHHHHHHHHT-TTSCEEEEECCTTTCCHHHH--HHHHHHHHHTTCCCEECBTTTTBTHHHHHHHH
T ss_pred             EeCCccccCCHHHHHHHHHHHHHhc-CCCCEEEEEECcccCChHHH--HHHHHHHHhcCCCeEEEeCCCCcCHHHHHHHH
Confidence            9999877  6788888988887754 27899999999999654332  44556677788999999999999999999999


Q ss_pred             HHHHHhh
Q 030225          150 AKRLAEV  156 (181)
Q Consensus       150 ~~~~~~~  156 (181)
                      .+.+...
T Consensus       331 ~~~l~~~  337 (357)
T 2e87_A          331 IKTLRPL  337 (357)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988664

>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=1.3e-23  Score=162.40  Aligned_cols=153  Identities=22%  Similarity=0.170  Sum_probs=110.0

Q ss_pred             CCCchhHHHHHHhhCCC-CCccccceeeeEEEEEEEECCeEEEEEEEeCCC----------hhhhhccch-hhccCCcEE
Q 030225            1 MGTGKTSLVLRFVKGQF-FDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAG----------QERYHSLAP-MYYRGAAAA   68 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~-~~~~~~d~~   68 (181)
                      ||+|||||+++|++... .....++++.+.....+..++.  .+.+|||||          ++.|..+.. .+++.+|++
T Consensus       204 ~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~  281 (456)
T 4dcu_A          204 PNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVV  281 (456)
T ss_dssp             TTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTE--EEEETTGGGTTTBTTBCCCCSHHHHHHHHHHHHHCSEE
T ss_pred             CCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCc--eEEEEECCCCCcCcccchHHHHHHHHHHHHHHhhCCEE
Confidence            69999999999997652 2222334444433345555665  678999999          566666544 478899999


Q ss_pred             EEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHc-----CCeEEEEecCCCCCHH
Q 030225           69 VVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQEN-----GLSFLETSAKSAHNVN  143 (181)
Q Consensus        69 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~Sa~~~~gi~  143 (181)
                      ++|+|++++-. +....|+..+..   .+.|+++++||+|+.+.++...++..+.++..     +++++++||++|.|++
T Consensus       282 llviD~~~~~~-~~~~~~~~~~~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~  357 (456)
T 4dcu_A          282 AVVLDGEEGII-EQDKRIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKKRIH  357 (456)
T ss_dssp             EEEEETTTCCC-HHHHHHHHHHHH---TTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCEEECCTTTCTTGG
T ss_pred             EEEEeCCCCcC-HHHHHHHHHHHH---cCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCEEEEcCCCCcCHH
Confidence            99999987433 223445555544   46899999999999876666667777666665     5799999999999999


Q ss_pred             HHHHHHHHHHHhhCCC
Q 030225          144 ELFYEIAKRLAEVNPS  159 (181)
Q Consensus       144 ~~~~~l~~~~~~~~~~  159 (181)
                      ++|+++.+.+.+....
T Consensus       358 ~l~~~i~~~~~~~~~~  373 (456)
T 4dcu_A          358 TLMPAIIKASENHSLR  373 (456)
T ss_dssp             GHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHhccc
Confidence            9999999988766543

>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=99.90  E-value=6.5e-23  Score=158.51  Aligned_cols=147  Identities=15%  Similarity=0.136  Sum_probs=89.7

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccc--------hhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLA--------PMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------~~~~~~~d~~i~v   71 (181)
                      ||||||||+|+|.+.... ....++++.+.....+..++  +.+.+|||||...+...+        ..++.++|++++|
T Consensus       242 ~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g--~~l~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~V  319 (476)
T 3gee_A          242 PNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK--TMFRLTDTAGLREAGEEIEHEGIRRSRMKMAEADLILYL  319 (476)
T ss_dssp             TTSSHHHHHHHCC------------------CEEEEETT--EEEEEEC--------------------CCCSSCSEEEEE
T ss_pred             CCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCCCcchhHHHHHHHHHHHhhcccCCEEEEE
Confidence            799999999999987532 22334444444445556665  468899999987655433        3468899999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           72 YDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +|++++.++..+..+...+...  .+.|+++|+||+|+......   ....+......+++++||++|+|+++++++|.+
T Consensus       320 vD~s~~~s~~~~~~~~~~l~~l--~~~piIvV~NK~Dl~~~~~~---~~~~l~~~~~~~~i~vSAktg~GI~eL~~~i~~  394 (476)
T 3gee_A          320 LDLGTERLDDELTEIRELKAAH--PAAKFLTVANKLDRAANADA---LIRAIADGTGTEVIGISALNGDGIDTLKQHMGD  394 (476)
T ss_dssp             EETTTCSSGGGHHHHHHHHHHC--TTSEEEEEEECTTSCTTTHH---HHHHHHHHHTSCEEECBTTTTBSHHHHHHHHTH
T ss_pred             EECCCCcchhhhHHHHHHHHhc--CCCCEEEEEECcCCCCccch---hHHHHHhcCCCceEEEEECCCCCHHHHHHHHHH
Confidence            9999987775433333333332  27899999999999654432   223333332478999999999999999999999


Q ss_pred             HHH
Q 030225          152 RLA  154 (181)
Q Consensus       152 ~~~  154 (181)
                      .+.
T Consensus       395 ~~~  397 (476)
T 3gee_A          395 LVK  397 (476)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            887

>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=99.89  E-value=9.2e-24  Score=157.10  Aligned_cols=152  Identities=20%  Similarity=0.199  Sum_probs=110.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh----hhccchhhcc---CCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER----YHSLAPMYYR---GAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~~~~---~~d~~i~v~d   73 (181)
                      ||||||||+++|++........+..+.......+.+++. ..+.+||+||...    +..+...|++   .+|++|+|+|
T Consensus       167 ~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~~~-~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d~ll~VvD  245 (342)
T 1lnz_A          167 PSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDG-RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVID  245 (342)
T ss_dssp             TTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSS-CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEE
T ss_pred             CCCCHHHHHHHHHcCCCccccCCccccCceEEEEEeCCC-ceEEEecCCCCcccccccchhHHHHHHHHHhccEEEEEEE
Confidence            799999999999986543211121111122223444431 4688999999643    3344455544   4999999999


Q ss_pred             CCC---hhHHHHHHHHHHHHHHhC--CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC--CeEEEEecCCCCCHHHHH
Q 030225           74 ITS---MDSFERAKKWVQELQRQG--NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG--LSFLETSAKSAHNVNELF  146 (181)
Q Consensus        74 ~~~---~~s~~~~~~~~~~~~~~~--~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~~~  146 (181)
                      +++   .++++.+..|+..+....  ...+|+++|+||+|+....    +....+.+.++  .+++++||++++|+++++
T Consensus       246 ~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~----e~~~~l~~~l~~~~~v~~iSA~tg~gi~eL~  321 (342)
T 1lnz_A          246 MSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAVTREGLRELL  321 (342)
T ss_dssp             SSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSCCSSTTHHHH
T ss_pred             CCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCH----HHHHHHHHHhhcCCCEEEEECCCCcCHHHHH
Confidence            998   788999999999988764  2578999999999986432    34455666666  689999999999999999


Q ss_pred             HHHHHHHHhhC
Q 030225          147 YEIAKRLAEVN  157 (181)
Q Consensus       147 ~~l~~~~~~~~  157 (181)
                      ++|.+.+.+..
T Consensus       322 ~~l~~~l~~~~  332 (342)
T 1lnz_A          322 FEVANQLENTP  332 (342)
T ss_dssp             HHHHHHHTSCC
T ss_pred             HHHHHHHhhCc
Confidence            99999887654

>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=99.88  E-value=1.5e-22  Score=151.10  Aligned_cols=132  Identities=20%  Similarity=0.277  Sum_probs=108.5

Q ss_pred             ccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCC----------hhHHHHHHHHHHHHH
Q 030225           22 ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITS----------MDSFERAKKWVQELQ   91 (181)
Q Consensus        22 ~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~~~   91 (181)
                      .+|+|...  ..+.++  .+.+.+||++|++.++..|..++++++++|||||+++          ..++.+...|+..+.
T Consensus       178 ~~T~Gi~~--~~~~~~--~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~  253 (353)
T 1cip_A          178 VKTTGIVE--THFTFK--DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSIC  253 (353)
T ss_dssp             CCCCSEEE--EEEEET--TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHH
T ss_pred             CceeceEE--EEEeeC--CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHH
Confidence            45666543  334444  5688999999999999999999999999999999998          567999999999887


Q ss_pred             HhC-CCCceEEEEEeCCCCcccc---------------cCCHHHHHHHHH-----------HcCCeEEEEecCCCCCHHH
Q 030225           92 RQG-NPNLIMFLVANKVDLEEKR---------------KVKNEEGELYAQ-----------ENGLSFLETSAKSAHNVNE  144 (181)
Q Consensus        92 ~~~-~~~~p~ivi~nK~D~~~~~---------------~~~~~~~~~~~~-----------~~~~~~~~~Sa~~~~gi~~  144 (181)
                      ... ..+.|+++++||+|+...+               .+..+++..++.           .+++.++++||+++.||++
T Consensus       254 ~~~~~~~~piiLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~  333 (353)
T 1cip_A          254 NNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQF  333 (353)
T ss_dssp             TCGGGTTSEEEEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHH
T ss_pred             cCccccCCcEEEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHH
Confidence            742 3679999999999985432               366788888886           3567899999999999999


Q ss_pred             HHHHHHHHHHhhC
Q 030225          145 LFYEIAKRLAEVN  157 (181)
Q Consensus       145 ~~~~l~~~~~~~~  157 (181)
                      +|+++.+.+.+.+
T Consensus       334 vF~~v~~~i~~~~  346 (353)
T 1cip_A          334 VFDAVTDVIIKNN  346 (353)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988764

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.88  E-value=1.6e-23  Score=159.52  Aligned_cols=147  Identities=18%  Similarity=0.182  Sum_probs=104.9

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhcc-------chhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSL-------APMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-------~~~~~~~~d~~i~v~   72 (181)
                      +|+|||||+++|++..+. ....+.++.+.....+...+.. .+.+|||||+..+..+       +..++..+|++|+|+
T Consensus        43 ~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~~-~l~liDTpG~~d~~~l~~~~~~~~~~~l~~aD~vllVv  121 (423)
T 3qq5_A           43 RNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPIG-PVTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVT  121 (423)
T ss_dssp             CSTTTTTTTTSSCC-------------CCCCEEEEEETTTE-EEEEEECSSTTCCCTTCCCCHHHHHHHHTSCSEEEEEC
T ss_pred             CCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCCC-eEEEEECcCCCcccchhHHHHHHHHHHHhcCCEEEEEE
Confidence            589999999999988763 2223344444445555555542 7889999999876554       345788999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      |++..+   ....|+..+...   +.|+++|+||+|+......  +....+.+.++++++++||++|.|++++|++|.+.
T Consensus       122 D~~~~~---~~~~~l~~l~~~---~~piIvV~NK~Dl~~~~~~--~~~~~l~~~~g~~v~~vSAktg~gI~eL~~~L~~~  193 (423)
T 3qq5_A          122 DSAPTP---YEDDVVNLFKEM---EIPFVVVVNKIDVLGEKAE--ELKGLYESRYEAKVLLVSALQKKGFDDIGKTISEI  193 (423)
T ss_dssp             SSSCCH---HHHHHHHHHHHT---TCCEEEECCCCTTTTCCCT--HHHHHSSCCTTCCCCCCSSCCTTSTTTHHHHHHHH
T ss_pred             eCCChH---HHHHHHHHHHhc---CCCEEEEEeCcCCCCccHH--HHHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            984332   335666666554   6899999999999765543  55566666778999999999999999999999998


Q ss_pred             HHhh
Q 030225          153 LAEV  156 (181)
Q Consensus       153 ~~~~  156 (181)
                      +.+.
T Consensus       194 l~~~  197 (423)
T 3qq5_A          194 LPGD  197 (423)
T ss_dssp             SCCC
T ss_pred             hhhh
Confidence            8544

>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=99.87  E-value=2.9e-21  Score=147.39  Aligned_cols=153  Identities=16%  Similarity=0.148  Sum_probs=95.9

Q ss_pred             CCCchhHHHHHHhhC---CCCCcccc--ceeeeEEEEEEEE-------------C--C----eEEEEEEEeCCChhhhhc
Q 030225            1 MGTGKTSLVLRFVKG---QFFDFQES--TIGAAFFTQVLSL-------------N--E----VTIKFDIWDTAGQERYHS   56 (181)
Q Consensus         1 ~~~GKttLl~~l~~~---~~~~~~~~--t~~~~~~~~~~~~-------------~--~----~~~~~~i~D~~G~~~~~~   56 (181)
                      +++|||||+++|.+.   .+..+..+  |+...+....+..             +  +    ....+.+||+||++.|..
T Consensus        17 ~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~iiDtPGh~~f~~   96 (408)
T 1s0u_A           17 VDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSFVDSPGHETLMA   96 (408)
T ss_dssp             TTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEEEECSSHHHHHH
T ss_pred             CCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEEEECCCHHHHHH
Confidence            589999999999854   33333334  4443443333221             1  1    137899999999999988


Q ss_pred             cchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc--CCHHHHHHHHHH---cCCeE
Q 030225           57 LAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK--VKNEEGELYAQE---NGLSF  131 (181)
Q Consensus        57 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~--~~~~~~~~~~~~---~~~~~  131 (181)
                      .+...+..+|++|+|+|++++........++..+...  ...|+++++||+|+.+...  ...++...+++.   .++++
T Consensus        97 ~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~l--~~~~iivv~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~  174 (408)
T 1s0u_A           97 TMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEIL--GIDKIIIVQNKIDLVDEKQAEENYEQIKEFVKGTIAENAPI  174 (408)
T ss_dssp             HHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT--TCCCEEEEEECTTSSCTTTTTTHHHHHHHHHTTSTTTTCCE
T ss_pred             HHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHHc--CCCeEEEEEEccCCCCHHHHHHHHHHHHHHHhhcCCCCCeE
Confidence            8777888999999999999642122222333333332  2357999999999976433  233455566554   35789


Q ss_pred             EEEecCCCCCHHHHHHHHHHHHHh
Q 030225          132 LETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       132 ~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +++||++|+|+++++++|.+.+..
T Consensus       175 i~vSA~~g~gi~~L~~~l~~~i~~  198 (408)
T 1s0u_A          175 IPISAHHEANIDVLLKAIQDFIPT  198 (408)
T ss_dssp             EEC------CHHHHHHHHHHHSCC
T ss_pred             EEeeCCCCCCHHHHHHHHHHhCCC
Confidence            999999999999999999886653

>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=99.87  E-value=8.8e-22  Score=151.55  Aligned_cols=146  Identities=21%  Similarity=0.177  Sum_probs=96.2

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChhh---------hhccchhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER---------YHSLAPMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~~~~d~~i~   70 (181)
                      ||||||||+|+|++.... ....+.++.++....+..++.  .+.+|||||...         +...+..+++++|++++
T Consensus        10 pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~ad~il~   87 (439)
T 1mky_A           10 PNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGK--TFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLF   87 (439)
T ss_dssp             TTSSHHHHHHHHHC--------------CCSEEEEEETTE--EEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEE
T ss_pred             CCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECCe--EEEEEECCCccccccchHHHHHHHHHHHHHHhCCEEEE
Confidence            799999999999987743 222244444444555556665  578999999653         33446678999999999


Q ss_pred             EEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHH-HHHHHHcCC-eEEEEecCCCCCHHHHHHH
Q 030225           71 VYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG-ELYAQENGL-SFLETSAKSAHNVNELFYE  148 (181)
Q Consensus        71 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~-~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~  148 (181)
                      |+|++++.+...  .++..+...  .++|+++++||+|+.+..   ..+. ..+. ..++ .++++||++|.|+.+++++
T Consensus        88 V~D~~~~~~~~d--~~i~~~l~~--~~~p~ilv~NK~D~~~~~---~~~~~~~~~-~lg~~~~~~iSA~~g~gv~~L~~~  159 (439)
T 1mky_A           88 VVDGKRGITKED--ESLADFLRK--STVDTILVANKAENLREF---EREVKPELY-SLGFGEPIPVSAEHNINLDTMLET  159 (439)
T ss_dssp             EEETTTCCCHHH--HHHHHHHHH--HTCCEEEEEESCCSHHHH---HHHTHHHHG-GGSSCSCEECBTTTTBSHHHHHHH
T ss_pred             EEECCCCCCHHH--HHHHHHHHH--cCCCEEEEEeCCCCcccc---HHHHHHHHH-hcCCCCEEEEeccCCCCHHHHHHH
Confidence            999987544322  222222222  268999999999985421   1222 3333 4566 7899999999999999999


Q ss_pred             HHHHHHhh
Q 030225          149 IAKRLAEV  156 (181)
Q Consensus       149 l~~~~~~~  156 (181)
                      +.+.+.+.
T Consensus       160 i~~~l~~~  167 (439)
T 1mky_A          160 IIKKLEEK  167 (439)
T ss_dssp             HHHHHHHT
T ss_pred             HHHhcccc
Confidence            99988754

>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=99.87  E-value=1.4e-22  Score=148.76  Aligned_cols=149  Identities=16%  Similarity=0.134  Sum_probs=100.1

Q ss_pred             CCCchhHHHHHHhhCCCCCcc-ccceeeeEEEEEEEECCeEEEEEEEeCCChh---------hhhccchhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ-ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE---------RYHSLAPMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~~~~~d~~i~   70 (181)
                      ||||||||+|+|++..+.... .+.+........+..  ...++.+|||||..         .+......+++.+|++++
T Consensus        17 ~nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~~--~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~~D~vl~   94 (301)
T 1ega_A           17 PNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTE--GAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIF   94 (301)
T ss_dssp             SSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEE--TTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEE
T ss_pred             CCCCHHHHHHHHHCCCccccCCCCCcceeeEEEEEEE--CCeeEEEEECcCCCccchhhHHHHHHHHHHHHHhcCCEEEE
Confidence            799999999999998764321 121111111112222  33578899999986         233445677899999999


Q ss_pred             EEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHH
Q 030225           71 VYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        71 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l  149 (181)
                      |+|+++   +.....|+......  .+.|.++++||+|+........+....+...+++ .++++||+++.|+++++++|
T Consensus        95 Vvd~~~---~~~~~~~i~~~l~~--~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~~~~~~i~iSA~~g~~v~~l~~~i  169 (301)
T 1ega_A           95 VVEGTR---WTPDDEMVLNKLRE--GKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIV  169 (301)
T ss_dssp             EEETTC---CCHHHHHHHHHHHS--SSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTTHHHHHHHH
T ss_pred             EEeCCC---CCHHHHHHHHHHHh--cCCCEEEEEECcccCccHHHHHHHHHHHHHhcCcCceEEEECCCCCCHHHHHHHH
Confidence            999976   33333444333332  4689999999999865222223444555555665 69999999999999999999


Q ss_pred             HHHHHhh
Q 030225          150 AKRLAEV  156 (181)
Q Consensus       150 ~~~~~~~  156 (181)
                      ...+.+.
T Consensus       170 ~~~l~~~  176 (301)
T 1ega_A          170 RKHLPEA  176 (301)
T ss_dssp             HTTCCBC
T ss_pred             HHhCCcC
Confidence            8766543

>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=3e-21  Score=144.84  Aligned_cols=156  Identities=18%  Similarity=0.081  Sum_probs=103.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh---------hhhccchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE---------RYHSLAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~~~~~d~~i~v   71 (181)
                      ||||||||+|+|.+........+..+.+.....+.+++.  .+.+|||+|..         .+...+. .+..+|++++|
T Consensus       188 ~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g~--~v~l~DT~G~i~~lp~~lve~f~~tl~-~~~~aD~il~V  264 (364)
T 2qtf_A          188 TNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINNR--KIMLVDTVGFIRGIPPQIVDAFFVTLS-EAKYSDALILV  264 (364)
T ss_dssp             TTSSHHHHHHHHHCC-----------CCSCEEEEEETTE--EEEEEECCCBCSSCCGGGHHHHHHHHH-GGGGSSEEEEE
T ss_pred             CCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECCE--EEEEEeCCCchhcCCHHHHHHHHHHHH-HHHhCCEEEEE
Confidence            799999999999987764333333333444556667774  57899999962         2333332 47889999999


Q ss_pred             EECCChh--HHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC-CHHHHHHHHHHc---CCeEEEEecCCCCCHHHH
Q 030225           72 YDITSMD--SFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV-KNEEGELYAQEN---GLSFLETSAKSAHNVNEL  145 (181)
Q Consensus        72 ~d~~~~~--s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~-~~~~~~~~~~~~---~~~~~~~Sa~~~~gi~~~  145 (181)
                      +|++++.  ....+..|...+......+.|+++|+||+|+...... ....+..++...   +.+++++||+++.|++++
T Consensus       265 vD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~l~~~l~~~~~~~~~~SA~~g~gi~~L  344 (364)
T 2qtf_A          265 IDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALKRTNLELL  344 (364)
T ss_dssp             EETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCSCHHHHHHHHHHHHHHHCSCEEEEEECBTTTTBSHHHH
T ss_pred             EECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCchHHHHHHHHHHHHHHhcCCCCcEEEEECCCCcCHHHH
Confidence            9999876  5555666666666555567899999999998542210 011222233444   346899999999999999


Q ss_pred             HHHHHHHHHhhCCC
Q 030225          146 FYEIAKRLAEVNPS  159 (181)
Q Consensus       146 ~~~l~~~~~~~~~~  159 (181)
                      +++|.+.+.....+
T Consensus       345 ~~~I~~~l~~~~~~  358 (364)
T 2qtf_A          345 RDKIYQLATQLSLE  358 (364)
T ss_dssp             HHHHHHHHHHHC--
T ss_pred             HHHHHHHhcccCCC
Confidence            99999988776543

>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=99.87  E-value=4.1e-22  Score=154.21  Aligned_cols=144  Identities=22%  Similarity=0.204  Sum_probs=104.0

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChh-hhhc--------cchhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE-RYHS--------LAPMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~-~~~~--------~~~~~~~~~d~~i~   70 (181)
                      ||||||||+|+|.+.... ....+.++.+.....+.+++.  .+.+|||||.. .+..        ....+++.+|++|+
T Consensus       252 pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g~--~~~l~DTaG~~~~~~~~ve~~gi~~~~~~~~~aD~vl~  329 (482)
T 1xzp_A          252 PNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGI--LFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLF  329 (482)
T ss_dssp             HHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETTE--EEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEE
T ss_pred             CCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCCe--EEEEEECCCccccchhhHHHHHHHHHHHHhhcccEEEE
Confidence            689999999999987532 233344455555556666654  57899999987 5432        13457889999999


Q ss_pred             EEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHH
Q 030225           71 VYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        71 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      |+|++++.+++... +++.+     .++|+++|+||+|+...  ...++...+. ..+++++++||++|+|+++++++|.
T Consensus       330 VvD~s~~~s~~~~~-il~~l-----~~~piivV~NK~DL~~~--~~~~~~~~~~-~~~~~~i~iSAktg~Gi~eL~~~l~  400 (482)
T 1xzp_A          330 VLDASSPLDEEDRK-ILERI-----KNKRYLVVINKVDVVEK--INEEEIKNKL-GTDRHMVKISALKGEGLEKLEESIY  400 (482)
T ss_dssp             EEETTSCCCHHHHH-HHHHH-----TTSSEEEEEEECSSCCC--CCHHHHHHHH-TCSTTEEEEEGGGTCCHHHHHHHHH
T ss_pred             EecCCCCCCHHHHH-HHHHh-----cCCCEEEEEECcccccc--cCHHHHHHHh-cCCCcEEEEECCCCCCHHHHHHHHH
Confidence            99999887765532 22332     36799999999999642  3334444443 2447899999999999999999999


Q ss_pred             HHHHh
Q 030225          151 KRLAE  155 (181)
Q Consensus       151 ~~~~~  155 (181)
                      +.+..
T Consensus       401 ~~~~~  405 (482)
T 1xzp_A          401 RETQE  405 (482)
T ss_dssp             HHTHH
T ss_pred             HHHhh
Confidence            97654

>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=99.87  E-value=3.5e-21  Score=146.70  Aligned_cols=153  Identities=15%  Similarity=0.101  Sum_probs=106.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEE-------EE---------E---ECCeEEEEEEEeCCChhhhhccchhh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQ-------VL---------S---LNEVTIKFDIWDTAGQERYHSLAPMY   61 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~-------~~---------~---~~~~~~~~~i~D~~G~~~~~~~~~~~   61 (181)
                      +|+|||||+++|.+....... .....+....       .+         .   ......++.+|||||++.|...+..+
T Consensus        17 ~~~GKSTLi~~L~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtPGh~~~~~~~~~~   95 (403)
T 3sjy_A           17 VDHGKTTLVQAITGIWTSKKL-GYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDAPGHEVLMATMLSG   95 (403)
T ss_dssp             TTSSHHHHHHHHHSCCCCSSS-EEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEEECCCCGGGHHHHHHH
T ss_pred             CCCCHHHHHHHHhCccccccc-CccccceeeccccccccceecccccccccccccccccceEEEEECCCcHHHHHHHHHH
Confidence            689999999999975433211 0000000000       00         0   01223689999999999999999999


Q ss_pred             ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC--CHHHHHHHHHHc---CCeEEEEec
Q 030225           62 YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV--KNEEGELYAQEN---GLSFLETSA  136 (181)
Q Consensus        62 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~--~~~~~~~~~~~~---~~~~~~~Sa  136 (181)
                      +..+|++|+|+|++++.++.....|+..+....  .+|+++++||+|+.+....  ..++...+....   +++++++||
T Consensus        96 ~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~--~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~ii~vSA  173 (403)
T 3sjy_A           96 AALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVVSKEEALSQYRQIKQFTKGTWAENVPIIPVSA  173 (403)
T ss_dssp             HTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEEECBT
T ss_pred             HhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcC--CCCEEEEEECccccchHHHHHHHHHHHHHHHhhCCCCCEEEEEEC
Confidence            999999999999998776777778877766553  3589999999998653321  112222333222   578999999


Q ss_pred             CCCCCHHHHHHHHHHHHHhh
Q 030225          137 KSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       137 ~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ++|+|+++++++|.+.+...
T Consensus       174 ~~g~gi~~L~~~l~~~l~~~  193 (403)
T 3sjy_A          174 LHKINIDSLIEGIEEYIKTP  193 (403)
T ss_dssp             TTTBSHHHHHHHHHHHSCCC
T ss_pred             CCCcChHHHHHHHHHhCCCC
Confidence            99999999999998876543

>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=99.87  E-value=5.7e-22  Score=146.10  Aligned_cols=144  Identities=15%  Similarity=0.212  Sum_probs=115.2

Q ss_pred             HHHhhCCCCCc-------cccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECC-------
Q 030225           10 LRFVKGQFFDF-------QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDIT-------   75 (181)
Q Consensus        10 ~~l~~~~~~~~-------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~-------   75 (181)
                      .|+....+.++       +.+|+|..  ...+.++  .+.+.+||++|++.++..|..|+++++++|||||++       
T Consensus       133 ~Ri~~~~Y~PT~~Dilr~r~~TiGi~--~~~~~~~--~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~  208 (327)
T 3ohm_A          133 DRVADPSYLPTQQDVLRVRVPTTGII--EYPFDLQ--SVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLV  208 (327)
T ss_dssp             HHHHSTTCCCCHHHHTTCCCCCCSEE--EEEEEET--TEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCS
T ss_pred             HHHhccCCCccccchhcccCceeeEE--EEEEEee--ceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECcccccccc
Confidence            45566677665       56788843  3334444  478899999999999999999999999999999665       


Q ss_pred             ---ChhHHHHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccc----------------cCCHHHHHHHHH----------
Q 030225           76 ---SMDSFERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKR----------------KVKNEEGELYAQ----------  125 (181)
Q Consensus        76 ---~~~s~~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~----------------~~~~~~~~~~~~----------  125 (181)
                         +.+++.+...|+..+.... ..+.|+++++||+|+.+.+                +...+++..++.          
T Consensus       209 d~~~~nr~~es~~~~~~i~~~~~~~~~~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~  288 (327)
T 3ohm_A          209 ESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDS  288 (327)
T ss_dssp             SCTTSBHHHHHHHHHHHHHTSGGGTTCEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTT
T ss_pred             ccccHhHHHHHHHHHHHHhhhhccCCceEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccc
Confidence               6778888888888887642 3679999999999986543                467788888853          


Q ss_pred             HcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225          126 ENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       126 ~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ..++.++++||+++.||+.+|+.+.+.+.+++
T Consensus       289 ~~~i~~~~TsA~d~~nV~~vF~~v~~~Il~~~  320 (327)
T 3ohm_A          289 DKIIYSHFTCATDTENIRFVFAAVKDTILQLN  320 (327)
T ss_dssp             TSCEEEEECCTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             cCCcEEEEEEeecCHHHHHHHHHHHHHHHHHh
Confidence            35678899999999999999999999998764

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.87  E-value=1.1e-22  Score=156.53  Aligned_cols=145  Identities=17%  Similarity=0.140  Sum_probs=95.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh--------hhhccchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE--------RYHSLAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~~~~~~d~~i~v~   72 (181)
                      ||||||||+|+|.+..... ..++.|+++.............+.+|||||..        .+...+..+++++|++|+|+
T Consensus        12 ~nvGKStL~n~l~~~~~~~-v~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vv   90 (436)
T 2hjg_A           12 PNVGKSTIFNRIAGERISI-VEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMV   90 (436)
T ss_dssp             TTSSHHHHHHHHEEEECC------------CEEEECTTCSSCCEEEC---------CHHHHHHHHHHHHHHHCSEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCcee-ecCCCCCccceEEEEEEECCceEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEE
Confidence            7999999999999876643 34566776666666666666688999999985        56666778899999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      |++++.+...  .|+..+...  .++|+++++||+|+......    ...+. ..++ .++++||++|.|+.++++++.+
T Consensus        91 D~~~~~~~~d--~~~~~~l~~--~~~pvilv~NK~D~~~~~~~----~~~~~-~lg~~~~~~iSA~~g~gv~~L~~~i~~  161 (436)
T 2hjg_A           91 NGREGVTAAD--EEVAKILYR--TKKPVVLAVNKLDNTEMRAN----IYDFY-SLGFGEPYPISGTHGLGLGDLLDAVAE  161 (436)
T ss_dssp             ETTTCSCHHH--HHHHHHHTT--CCSCEEEEEECCCC-----C----CCSSG-GGSSCCCEECBTTTTBTHHHHHHHHHH
T ss_pred             eCCCCCCHHH--HHHHHHHHH--cCCCEEEEEECccCccchhh----HHHHH-HcCCCCeEEEeCcCCCChHHHHHHHHH
Confidence            9987655433  334443333  57899999999998643211    11122 3455 7899999999999999999998


Q ss_pred             HHHh
Q 030225          152 RLAE  155 (181)
Q Consensus       152 ~~~~  155 (181)
                      .+.+
T Consensus       162 ~l~~  165 (436)
T 2hjg_A          162 HFKN  165 (436)
T ss_dssp             TGGG
T ss_pred             hcCc
Confidence            8764

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.86  E-value=2.4e-21  Score=153.19  Aligned_cols=149  Identities=17%  Similarity=0.180  Sum_probs=102.2

Q ss_pred             CCCchhHHHHHHhhCCCCC-------ccc------cceeeeEEEEEEEE-----CCeEEEEEEEeCCChhhhhccchhhc
Q 030225            1 MGTGKTSLVLRFVKGQFFD-------FQE------STIGAAFFTQVLSL-----NEVTIKFDIWDTAGQERYHSLAPMYY   62 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~-------~~~------~t~~~~~~~~~~~~-----~~~~~~~~i~D~~G~~~~~~~~~~~~   62 (181)
                      +++|||||+++|+......       ...      ...|.++......+     ++..+.+++|||||+..|...+..++
T Consensus        13 ~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~dF~~ev~~~l   92 (599)
T 3cb4_D           13 IDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHVDFSYEVSRSL   92 (599)
T ss_dssp             C----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCGGGHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCchHHHHHHHHHH
Confidence            5899999999998632111       010      12233333322222     45578999999999999999999999


Q ss_pred             cCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC---eEEEEecCCC
Q 030225           63 RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL---SFLETSAKSA  139 (181)
Q Consensus        63 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~---~~~~~Sa~~~  139 (181)
                      +.+|++|+|+|++++........|.....    .+.|+++++||+|+.+..  .......+...+++   .++++||++|
T Consensus        93 ~~aD~aILVVDa~~gv~~qt~~~~~~~~~----~~ipiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~~vi~vSAktg  166 (599)
T 3cb4_D           93 AACEGALLVVDAGQGVEAQTLANCYTAME----MDLEVVPVLNKIDLPAAD--PERVAEEIEDIVGIDATDAVRCSAKTG  166 (599)
T ss_dssp             HHCSEEEEEEETTTCCCTHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--HHHHHHHHHHHTCCCCTTCEEECTTTC
T ss_pred             HHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEeeeccCccccc--HHHHHHHHHHHhCCCcceEEEeecccC
Confidence            99999999999998777666666655442    367999999999996532  22334555566676   4899999999


Q ss_pred             CCHHHHHHHHHHHHHh
Q 030225          140 HNVNELFYEIAKRLAE  155 (181)
Q Consensus       140 ~gi~~~~~~l~~~~~~  155 (181)
                      .|+++++++|.+.+..
T Consensus       167 ~GI~~Ll~~I~~~lp~  182 (599)
T 3cb4_D          167 VGVQDVLERLVRDIPP  182 (599)
T ss_dssp             TTHHHHHHHHHHHSCC
T ss_pred             CCchhHHHHHhhcCCC
Confidence            9999999999887654

>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=99.86  E-value=2.8e-21  Score=149.98  Aligned_cols=145  Identities=20%  Similarity=0.150  Sum_probs=100.2

Q ss_pred             CCCchhHHHHHHhhCC-------CCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQ-------FFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~-------~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   73 (181)
                      +++|||||+++|.+..       ...+..+.++.+.....+..++  ..+.+||+||++.|...+...+..+|++|+|+|
T Consensus        28 ~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~iiDtPGh~~~~~~~~~~~~~aD~~ilVvd  105 (482)
T 1wb1_A           28 IDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRAVVSAADIIDLALIVVD  105 (482)
T ss_dssp             TTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEE
T ss_pred             CCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC--EEEEEEECCChHHHHHHHHHHHhhCCEEEEEEe
Confidence            5899999999999876       2233333333333333344444  578899999999998888889999999999999


Q ss_pred             CCC---hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccc--cCCHHHHHHHHHHc----CCeEEEEecCCCCCHHH
Q 030225           74 ITS---MDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR--KVKNEEGELYAQEN----GLSFLETSAKSAHNVNE  144 (181)
Q Consensus        74 ~~~---~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~--~~~~~~~~~~~~~~----~~~~~~~Sa~~~~gi~~  144 (181)
                      +++   +.+.+    ++..+..   .+.|.++++||+|+.+..  +...++...++...    +++++++||++|+|+++
T Consensus       106 a~~g~~~qt~e----~l~~~~~---~~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~vSA~~g~gI~~  178 (482)
T 1wb1_A          106 AKEGPKTQTGE----HMLILDH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAKTGFGVDE  178 (482)
T ss_dssp             TTTCSCHHHHH----HHHHHHH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTTTCTTHHH
T ss_pred             cCCCccHHHHH----HHHHHHH---cCCCEEEEEECCCcccchhHHHHHHHHHHHHhhhcccccceEEEEECcCCCCHHH
Confidence            987   33333    2333322   357889999999996522  22233445555555    57899999999999999


Q ss_pred             HHHHHHHHHH
Q 030225          145 LFYEIAKRLA  154 (181)
Q Consensus       145 ~~~~l~~~~~  154 (181)
                      ++++|.+.+.
T Consensus       179 L~~~L~~~i~  188 (482)
T 1wb1_A          179 LKNLIITTLN  188 (482)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHhhc
Confidence            9999999876

>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=99.86  E-value=5e-22  Score=153.07  Aligned_cols=145  Identities=17%  Similarity=0.148  Sum_probs=95.4

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccc--------hhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLA--------PMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------~~~~~~~d~~i~v   71 (181)
                      ||||||||+|+|++.... ....++++.++....+.+++.  .+.+|||||...+....        ..++.++|++++|
T Consensus       233 ~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g~--~v~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~V  310 (462)
T 3geh_A          233 PNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGGI--PVQVLDTAGIRETSDQVEKIGVERSRQAANTADLVLLT  310 (462)
T ss_dssp             TTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETTE--EEEECC--------------------CCCCSCSEEEEE
T ss_pred             CCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECCE--EEEEEECCccccchhHHHHHHHHHHhhhhhcCCEEEEE
Confidence            799999999999986543 223344444444445556664  56899999986554332        3367899999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           72 YDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +|++++.+... ..|+..+     ...|+++|+||+|+.......  ....+.  .+.+++++||++|.|+++++++|.+
T Consensus       311 vD~s~~~~~~~-~~i~~~l-----~~~piivV~NK~Dl~~~~~~~--~~~~~~--~~~~~i~iSAktg~Gi~eL~~~i~~  380 (462)
T 3geh_A          311 IDAATGWTTGD-QEIYEQV-----KHRPLILVMNKIDLVEKQLIT--SLEYPE--NITQIVHTAAAQKQGIDSLETAILE  380 (462)
T ss_dssp             EETTTCSCHHH-HHHHHHH-----TTSCEEEEEECTTSSCGGGST--TCCCCT--TCCCEEEEBTTTTBSHHHHHHHHHH
T ss_pred             eccCCCCCHHH-HHHHHhc-----cCCcEEEEEECCCCCcchhhH--HHHHhc--cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            99998765543 4444444     236999999999997654432  111111  3578999999999999999999999


Q ss_pred             HHHhhC
Q 030225          152 RLAEVN  157 (181)
Q Consensus       152 ~~~~~~  157 (181)
                      .+....
T Consensus       381 ~~~~~~  386 (462)
T 3geh_A          381 IVQTGK  386 (462)
T ss_dssp             HHTTSS
T ss_pred             HHhccC
Confidence            887654

>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=99.86  E-value=2.2e-21  Score=145.24  Aligned_cols=145  Identities=13%  Similarity=0.165  Sum_probs=106.9

Q ss_pred             HHHHhhCCCCCc-------cccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCC-----
Q 030225            9 VLRFVKGQFFDF-------QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITS-----   76 (181)
Q Consensus         9 l~~l~~~~~~~~-------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~-----   76 (181)
                      +.|+....+.++       ..+|+|+..  ..+.++  .+.+.+||++|++.++..|..++++++++|||||+++     
T Consensus       166 ~~ri~~~~Y~PT~~Dil~~r~~T~Gi~~--~~~~~~--~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l  241 (362)
T 1zcb_A          166 LDKLGVPDYIPSQQDILLARRPTKGIHE--YDFEIK--NVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVL  241 (362)
T ss_dssp             HHHHTSTTCCCCHHHHHHCCCCCSSEEE--EEEEET--TEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEE
T ss_pred             HHHHhcCCCCCChhhhhhccCCccceEE--EEeeeC--CeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccc
Confidence            455565555554       335666543  334444  4688999999999999999999999999999999999     


Q ss_pred             -----hhHHHHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccc----------------cCCHHHHHHHHH---------
Q 030225           77 -----MDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKR----------------KVKNEEGELYAQ---------  125 (181)
Q Consensus        77 -----~~s~~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~----------------~~~~~~~~~~~~---------  125 (181)
                           ..++.+...|+..+... ...+.|+++++||+|+.+.+                .+..+++..++.         
T Consensus       242 ~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~  321 (362)
T 1zcb_A          242 MEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRD  321 (362)
T ss_dssp             TTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSS
T ss_pred             cccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcc
Confidence                 77999999999998764 23679999999999986432                266777777762         


Q ss_pred             --HcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225          126 --ENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       126 --~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                        ..++.++++||++++||+++|+++.+.+.+.+
T Consensus       322 ~~~~~~~~~~tSA~d~~nV~~vF~~v~~~i~~~~  355 (362)
T 1zcb_A          322 QQQRPLYHHFTTAINTENIRLVFRDVKDTILHDN  355 (362)
T ss_dssp             CC--CCEEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCCceEEEEEecCCchhHHHHHHHHHHHHHHHH
Confidence              34678999999999999999999999887653

>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=99.86  E-value=6.6e-21  Score=145.51  Aligned_cols=152  Identities=16%  Similarity=0.149  Sum_probs=101.7

Q ss_pred             CCCchhHHHHHHhhC---CCCCcccc--ceeeeEEEEEEEE-------------C--C----eEEEEEEEeCCChhhhhc
Q 030225            1 MGTGKTSLVLRFVKG---QFFDFQES--TIGAAFFTQVLSL-------------N--E----VTIKFDIWDTAGQERYHS   56 (181)
Q Consensus         1 ~~~GKttLl~~l~~~---~~~~~~~~--t~~~~~~~~~~~~-------------~--~----~~~~~~i~D~~G~~~~~~   56 (181)
                      +++|||||+++|.+.   .+..+..+  |+...+....+..             +  +    ...++.|||+||++.|..
T Consensus        19 ~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~iiDtPGh~~f~~   98 (410)
T 1kk1_A           19 VDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEALMT   98 (410)
T ss_dssp             TTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEEECSSHHHHHH
T ss_pred             CCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEEEEECCChHHHHH
Confidence            589999999999854   23334334  4443443333221             1  1    137899999999999888


Q ss_pred             cchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc--CCHHHHHHHHHH---cCCeE
Q 030225           57 LAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK--VKNEEGELYAQE---NGLSF  131 (181)
Q Consensus        57 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~--~~~~~~~~~~~~---~~~~~  131 (181)
                      .....+..+|++|+|+|++++.........+..+...  ..+|+++++||+|+.+...  ...++...++..   .++++
T Consensus        99 ~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~--~~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~  176 (410)
T 1kk1_A           99 TMLAGASLMDGAILVIAANEPCPRPQTREHLMALQII--GQKNIIIAQNKIELVDKEKALENYRQIKEFIEGTVAENAPI  176 (410)
T ss_dssp             HHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH--TCCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCE
T ss_pred             HHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHHc--CCCcEEEEEECccCCCHHHHHHHHHHHHHHHHhcCcCCCeE
Confidence            7777788899999999999642122222233333333  2357999999999865332  122334445443   35789


Q ss_pred             EEEecCCCCCHHHHHHHHHHHHH
Q 030225          132 LETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       132 ~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +++||++|+|+++++++|.+.+.
T Consensus       177 i~vSA~~g~gi~~L~~~l~~~~~  199 (410)
T 1kk1_A          177 IPISALHGANIDVLVKAIEDFIP  199 (410)
T ss_dssp             EECBTTTTBSHHHHHHHHHHHSC
T ss_pred             EEeeCCCCCCHHHHHHHHHHhCC
Confidence            99999999999999999987664

>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=99.86  E-value=5.3e-21  Score=151.02  Aligned_cols=149  Identities=17%  Similarity=0.236  Sum_probs=103.9

Q ss_pred             CCCchhHHHHHHhhCC--CCC-----cccc------ceeeeEE----EEEEEE-CCeEEEEEEEeCCChhhhhccchhhc
Q 030225            1 MGTGKTSLVLRFVKGQ--FFD-----FQES------TIGAAFF----TQVLSL-NEVTIKFDIWDTAGQERYHSLAPMYY   62 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~--~~~-----~~~~------t~~~~~~----~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~   62 (181)
                      +++|||||+++|+...  ...     ....      ..|.++.    ...+.. ++..+.+++|||||+..|...+..++
T Consensus        15 ~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh~dF~~ev~r~l   94 (600)
T 2ywe_A           15 VDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHVDFSYEVSRAL   94 (600)
T ss_dssp             --CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCSGGGHHHHHHHH
T ss_pred             CCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCcHhHHHHHHHHH
Confidence            5899999999998632  110     0001      1122221    111221 45578999999999999998888999


Q ss_pred             cCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC---eEEEEecCCC
Q 030225           63 RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL---SFLETSAKSA  139 (181)
Q Consensus        63 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~---~~~~~Sa~~~  139 (181)
                      +.+|++|+|+|++++........|.....    .+.|+++++||+|+.+..  ......++....++   .++++||++|
T Consensus        95 ~~aD~aILVVDa~~gv~~qt~~~~~~a~~----~~ipiIvviNKiDl~~a~--~~~v~~el~~~lg~~~~~vi~vSAktg  168 (600)
T 2ywe_A           95 AACEGALLLIDASQGIEAQTVANFWKAVE----QDLVIIPVINKIDLPSAD--VDRVKKQIEEVLGLDPEEAILASAKEG  168 (600)
T ss_dssp             HTCSEEEEEEETTTBCCHHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--HHHHHHHHHHTSCCCGGGCEECBTTTT
T ss_pred             HhCCEEEEEEECCCCccHHHHHHHHHHHH----CCCCEEEEEeccCccccC--HHHHHHHHHHhhCCCcccEEEEEeecC
Confidence            99999999999999877776666655442    468999999999986532  22334455555566   4899999999


Q ss_pred             CCHHHHHHHHHHHHHh
Q 030225          140 HNVNELFYEIAKRLAE  155 (181)
Q Consensus       140 ~gi~~~~~~l~~~~~~  155 (181)
                      .|+++++++|++.+..
T Consensus       169 ~GI~~Lle~I~~~lp~  184 (600)
T 2ywe_A          169 IGIEEILEAIVNRIPP  184 (600)
T ss_dssp             BSHHHHHHHHHHHSCC
T ss_pred             CCchHHHHHHHHhccc
Confidence            9999999999887654

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.85  E-value=3e-23  Score=161.84  Aligned_cols=152  Identities=17%  Similarity=0.167  Sum_probs=107.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|+|||||+++|.+..+.....++++.++....+..++ ..++.||||||++.|..++..+++.+|++|+|+|++++...
T Consensus        13 ~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~~-g~~i~~iDTPGhe~f~~~~~~~~~~aD~vILVVDa~dg~~~   91 (537)
T 3izy_P           13 VDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLPS-GEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMK   91 (537)
T ss_dssp             TTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSSC-SSCCBCEECSSSCCTTTSBBSSSBSBSSCEEECBSSSCCCH
T ss_pred             CCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeCC-CCEEEEEECCChHHHHHHHHHHHccCCEEEEEEECCCCccH
Confidence            68999999999998777665556665554444433322 23688999999999999999999999999999999985544


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc-CCHHHHHHH---HHHc--CCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK-VKNEEGELY---AQEN--GLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~-~~~~~~~~~---~~~~--~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      .... ++..+.   ..+.|+++++||+|+.+... ....+...+   +..+  .++++++||++|.|+++++++|...+.
T Consensus        92 qt~e-~l~~~~---~~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~e~~~~~~~iv~vSAktG~GI~eLle~I~~l~~  167 (537)
T 3izy_P           92 QTVE-SIQHAK---DAHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDYGGDVQAVHVSALTGENMMALAEATIALAE  167 (537)
T ss_dssp             HHHH-HHHHHH---TTTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCCCCSSSSEEECCCCSSSSCSSHHHHHHHHHHHT
T ss_pred             HHHH-HHHHHH---HcCCcEEEEEecccccccchHHHHHHHHhhhhhHHhcCCCceEEEEECCCCCCchhHHHHHHHhhh
Confidence            3322 233332   24679999999999864321 111122211   1112  247999999999999999999998776


Q ss_pred             hhC
Q 030225          155 EVN  157 (181)
Q Consensus       155 ~~~  157 (181)
                      ...
T Consensus       168 ~~~  170 (537)
T 3izy_P          168 MLE  170 (537)
T ss_dssp             TCC
T ss_pred             ccc
Confidence            443

>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=99.85  E-value=3.8e-21  Score=143.49  Aligned_cols=118  Identities=18%  Similarity=0.220  Sum_probs=95.6

Q ss_pred             eEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECC----------ChhHHHHHHHHHHHHHHhC-CCCceEEEEEeCC
Q 030225           39 VTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDIT----------SMDSFERAKKWVQELQRQG-NPNLIMFLVANKV  107 (181)
Q Consensus        39 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~~~~~~-~~~~p~ivi~nK~  107 (181)
                      ..+.+.+||++|++.++.+|..++++++++|+|||++          +..++++...|+..+.... ..+.|+++++||+
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            6789999999999999999999999999999999998          7889999999999887642 3679999999999


Q ss_pred             CCccccc--C-------------------CHHHHHHHHHH----------------cCCeEEEEecCCCCCHHHHHHHHH
Q 030225          108 DLEEKRK--V-------------------KNEEGELYAQE----------------NGLSFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus       108 D~~~~~~--~-------------------~~~~~~~~~~~----------------~~~~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      |+.+.+.  +                   ..+++..+++.                ..+.++++||++++||+++|+++.
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            9854321  1                   14566666443                124568999999999999999999


Q ss_pred             HHHHhh
Q 030225          151 KRLAEV  156 (181)
Q Consensus       151 ~~~~~~  156 (181)
                      +.+.+.
T Consensus       341 ~~I~~~  346 (354)
T 2xtz_A          341 ETLRRR  346 (354)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988764

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.85  E-value=1.2e-20  Score=144.96  Aligned_cols=142  Identities=15%  Similarity=0.142  Sum_probs=94.7

Q ss_pred             CCCchhHHHHHHhhCCCC-------------------------------CccccceeeeEEEEEEEECCeEEEEEEEeCC
Q 030225            1 MGTGKTSLVLRFVKGQFF-------------------------------DFQESTIGAAFFTQVLSLNEVTIKFDIWDTA   49 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-------------------------------~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~   49 (181)
                      +|+|||||+++|+.....                               .+..+.++.+.  ....+.....++.|||||
T Consensus        26 ~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~--~~~~~~~~~~~~~iiDTP  103 (439)
T 3j2k_7           26 VDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEV--GRAYFETEKKHFTILDAP  103 (439)
T ss_pred             CCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEE--eEEEEecCCeEEEEEECC
Confidence            689999999999653211                               11112333333  333344445689999999


Q ss_pred             ChhhhhccchhhccCCcEEEEEEECCChhH---HH---HHHHHHHHHHHhCCCCce-EEEEEeCCCCccc------ccCC
Q 030225           50 GQERYHSLAPMYYRGAAAAVVVYDITSMDS---FE---RAKKWVQELQRQGNPNLI-MFLVANKVDLEEK------RKVK  116 (181)
Q Consensus        50 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~~---~~~~~~~~~~~~~~~~~p-~ivi~nK~D~~~~------~~~~  116 (181)
                      |++.|...+...+..+|++|+|+|++++..   |+   .....+..+..   .+.| +++++||+|+...      .+..
T Consensus       104 Gh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~---~~v~~iIvviNK~Dl~~~~~~~~~~~~i  180 (439)
T 3j2k_7          104 GHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT---AGVKHLIVLINKMDDPTVNWSNERYEEC  180 (439)
T ss_pred             ChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHH---cCCCeEEEEeecCCCcccchHHHHHHHH
Confidence            999999998899999999999999987532   11   22333333333   2455 8999999998431      1112


Q ss_pred             HHHHHHHHHHcC------CeEEEEecCCCCCHHHHHH
Q 030225          117 NEEGELYAQENG------LSFLETSAKSAHNVNELFY  147 (181)
Q Consensus       117 ~~~~~~~~~~~~------~~~~~~Sa~~~~gi~~~~~  147 (181)
                      .++...+++..+      ++++++||++|.|+.++++
T Consensus       181 ~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          181 KEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             HHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            233444555544      4799999999999999766

>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=99.85  E-value=1.3e-20  Score=142.16  Aligned_cols=130  Identities=15%  Similarity=0.194  Sum_probs=103.2

Q ss_pred             cceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCC----------hhHHHHHHHHHHHHHH
Q 030225           23 STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITS----------MDSFERAKKWVQELQR   92 (181)
Q Consensus        23 ~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~~~~   92 (181)
                      +|+|+..  ..+.+++  +.+.+||++|++.++..|..++++++++|||||+++          ..+|.+...|+..+..
T Consensus       203 ~TiGi~~--~~~~~~~--v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~  278 (402)
T 1azs_C          203 LTSGIFE--TKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWN  278 (402)
T ss_dssp             CCCSEEE--EEEEETT--EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHT
T ss_pred             ceeeeEE--EEeecCC--ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHh
Confidence            3556543  3444554  788999999999999999999999999999999999          8899999999999877


Q ss_pred             hC-CCCceEEEEEeCCCCccccc---C---------------------------CHHHHHHHHH-----H--------cC
Q 030225           93 QG-NPNLIMFLVANKVDLEEKRK---V---------------------------KNEEGELYAQ-----E--------NG  128 (181)
Q Consensus        93 ~~-~~~~p~ivi~nK~D~~~~~~---~---------------------------~~~~~~~~~~-----~--------~~  128 (181)
                      .. ..+.|++|++||+|+...+.   +                           ..+++..|++     .        ++
T Consensus       279 ~~~~~~~piiLvgNK~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~  358 (402)
T 1azs_C          279 NRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHY  358 (402)
T ss_dssp             CTTCSSCCEEEEEECHHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSC
T ss_pred             cccCCCCeEEEEEEChhhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcc
Confidence            53 46899999999999854322   1                           1345555532     1        24


Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          129 LSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       129 ~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.++++||++++||+++|+++.+.+.+.
T Consensus       359 ~~~~~TSA~d~~nV~~vF~~v~~~I~~~  386 (402)
T 1azs_C          359 CYPHFTCAVDTENIRRVFNDCRDIIQRM  386 (402)
T ss_dssp             EEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             cEEEEEEeecCcCHHHHHHHHHHHHHHH
Confidence            6788999999999999999999988765

>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=99.85  E-value=3.5e-21  Score=149.73  Aligned_cols=142  Identities=18%  Similarity=0.161  Sum_probs=90.9

Q ss_pred             CCCchhHHHHHHhhCCCC--Ccc---------------------------ccceeeeEEEEEEEECCeEEEEEEEeCCCh
Q 030225            1 MGTGKTSLVLRFVKGQFF--DFQ---------------------------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ   51 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~--~~~---------------------------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   51 (181)
                      +|+|||||+++|+.....  ..+                           ....|+++......++....++.||||||+
T Consensus        42 ~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDTPG~  121 (483)
T 3p26_A           42 VDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHRANFTIVDAPGH  121 (483)
T ss_dssp             GGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECSSCEEEEECCCCC
T ss_pred             CCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecCCceEEEEECCCc
Confidence            589999999999865211  000                           011133333333444455568899999999


Q ss_pred             hhhhccchhhccCCcEEEEEEECCChhHHH------HHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHH----HH
Q 030225           52 ERYHSLAPMYYRGAAAAVVVYDITSMDSFE------RAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEE----GE  121 (181)
Q Consensus        52 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~------~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~----~~  121 (181)
                      +.|...+..++..+|++|+|+|++++.++.      .....+..+...  ..+|+++++||+|+.+..+...++    ..
T Consensus       122 ~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~--~~~~iIvviNK~Dl~~~~~~~~~~i~~~~~  199 (483)
T 3p26_A          122 RDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL--GIHNLIIAMNKMDNVDWSQQRFEEIKSKLL  199 (483)
T ss_dssp             GGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHT--TCCCEEEEEECGGGGTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHc--CCCcEEEEEECcCcccchHHHHHHHHHHHH
Confidence            999999999999999999999999865432      222222233222  235799999999986533322222    23


Q ss_pred             HHHHHc-----CCeEEEEecCCCCCHHH
Q 030225          122 LYAQEN-----GLSFLETSAKSAHNVNE  144 (181)
Q Consensus       122 ~~~~~~-----~~~~~~~Sa~~~~gi~~  144 (181)
                      .++...     +++++++||++|+|+.+
T Consensus       200 ~~l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          200 PYLVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             HHHHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             HHHHHcCCCcccceEEEEeeecCCCccc
Confidence            333333     35799999999999874

>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=99.84  E-value=2.7e-21  Score=139.32  Aligned_cols=153  Identities=18%  Similarity=0.136  Sum_probs=97.2

Q ss_pred             CCCchhHHHHHHhhCCC-CCccccc-eeeeEEEEEEEECCeEEEEEEEeCCChhhhhccc-----------hhhccCCcE
Q 030225            1 MGTGKTSLVLRFVKGQF-FDFQEST-IGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLA-----------PMYYRGAAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~-~~~~~~t-~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~-----------~~~~~~~d~   67 (181)
                      ||||||||+++|++... ...+.++ ++.+........++  ..+.||||||...+....           ..+++.+|+
T Consensus        31 ~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~~~d~  108 (260)
T 2xtp_A           31 TGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN--REIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPGPHV  108 (260)
T ss_dssp             TTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT--EEEEEEECCGGGGSSCCCHHHHHHHHHHHHHHTTCCSE
T ss_pred             CCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC--CEEEEEECcCCCCCCCCHHHHHHHHHHHHHhcCCCCcE
Confidence            69999999999998773 3333333 33333334444454  468899999986543222           236789999


Q ss_pred             EEEEEECCChhHH-HHHHHHHHHHHHhCCCCceEEEEEe-CCCCcccccCCH-------HHHHHHHHHcCCe---E--EE
Q 030225           68 AVVVYDITSMDSF-ERAKKWVQELQRQGNPNLIMFLVAN-KVDLEEKRKVKN-------EEGELYAQENGLS---F--LE  133 (181)
Q Consensus        68 ~i~v~d~~~~~s~-~~~~~~~~~~~~~~~~~~p~ivi~n-K~D~~~~~~~~~-------~~~~~~~~~~~~~---~--~~  133 (181)
                      +++|+|+++.... ..+..|+..+.... ...|.++++| |+|+.+. ....       .++..++...+..   +  ++
T Consensus       109 il~V~d~~~~~~~~~~~~~~l~~~~~~~-~~~~~i~vv~nK~Dl~~~-~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~  186 (260)
T 2xtp_A          109 LLLVTQLGRYTSQDQQAAQRVKEIFGED-AMGHTIVLFTHKEDLNGG-SLMDYMHDSDNKALSKLVAACGGRICAFNNRA  186 (260)
T ss_dssp             EEEEEETTCCCHHHHHHHHHHHHHHCGG-GGGGEEEEEECGGGGTTC-CHHHHHHHCCCHHHHHHHHHTTTCEEECCTTC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhCch-hhccEEEEEEcccccCCc-cHHHHHHhcchHHHHHHHHHhCCeEEEecCcc
Confidence            9999999862222 22233333332211 1345555555 9998642 1111       2244456655532   2  78


Q ss_pred             EecCCCCCHHHHHHHHHHHHHhhC
Q 030225          134 TSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       134 ~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +||+++.|++++|++|.+.+.+..
T Consensus       187 ~SA~~~~gv~~l~~~i~~~~~~~~  210 (260)
T 2xtp_A          187 EGSNQDDQVKELMDCIEDLLMEKN  210 (260)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             cccccHHHHHHHHHHHHHHHHhCC
Confidence            999999999999999999988765

>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=99.84  E-value=2.3e-20  Score=132.89  Aligned_cols=152  Identities=15%  Similarity=0.130  Sum_probs=99.0

Q ss_pred             CCCchhHHHHHHhhCCCCCcccc--ceeeeEEEEEEEECCeEEEEEEEeCCCh-----------hhhhccchhhccCCcE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQES--TIGAAFFTQVLSLNEVTIKFDIWDTAGQ-----------ERYHSLAPMYYRGAAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~--t~~~~~~~~~~~~~~~~~~~~i~D~~G~-----------~~~~~~~~~~~~~~d~   67 (181)
                      +|||||||+++|++..+.....+  +++..........++.  .+.+|||||.           ..+...+..++.++|+
T Consensus        38 ~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~i~liDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (239)
T 3lxx_A           38 TGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKET--ELVVVDTPGIFDTEVPNAETSKEIIRCILLTSPGPHA  115 (239)
T ss_dssp             TTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETTE--EEEEEECCSCC-----CHHHHHHHHHHHHHTTTCCSE
T ss_pred             CCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCCc--eEEEEECCCccCCCCCHHHHHHHHHHHHHhcCCCCcE
Confidence            69999999999999887665545  3333444444555554  6789999993           3444445556778999


Q ss_pred             EEEEEECCChhHHHHHHHHHHHHHHhC--CCCceEEEEEeCCCCcccccCC------HHHHHHHHHHcCCeEEEEecCCC
Q 030225           68 AVVVYDITSMDSFERAKKWVQELQRQG--NPNLIMFLVANKVDLEEKRKVK------NEEGELYAQENGLSFLETSAKSA  139 (181)
Q Consensus        68 ~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~p~ivi~nK~D~~~~~~~~------~~~~~~~~~~~~~~~~~~Sa~~~  139 (181)
                      +|+|+|+++....  ...|+..+....  ....|+++++||+|+.+...+.      .+....+++..+..++.++...+
T Consensus       116 ~l~v~d~~~~~~~--~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~~~~~~~~~~~~~~~  193 (239)
T 3lxx_A          116 LLLVVPLGRYTEE--EHKATEKILKMFGERARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMDIFGDRYCALNNKAT  193 (239)
T ss_dssp             EEEEEETTCCSSH--HHHHHHHHHHHHHHHHGGGEEEEEECGGGC------------CHHHHHHHHHHSSSEEECCTTCC
T ss_pred             EEEEeeCCCCCHH--HHHHHHHHHHHhhhhccceEEEEEeCCccCCcccHHHHHHhchHHHHHHHHHcCCEEEEEECCCC
Confidence            9999998764331  122333332211  0245899999999986543332      23567778888888888877654


Q ss_pred             -----CCHHHHHHHHHHHHHhh
Q 030225          140 -----HNVNELFYEIAKRLAEV  156 (181)
Q Consensus       140 -----~gi~~~~~~l~~~~~~~  156 (181)
                           .++.++|+.+...+.+.
T Consensus       194 ~~~~~~~v~~ll~~i~~~~~~~  215 (239)
T 3lxx_A          194 GAEQEAQRAQLLGLIQRVVREN  215 (239)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHC
T ss_pred             ccccHHHHHHHHHHHHHHHHHc
Confidence                 68999999998887664

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.84  E-value=3.3e-21  Score=145.01  Aligned_cols=140  Identities=9%  Similarity=0.031  Sum_probs=99.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +++|||||+++|+      ....|+.  ...  ..+.....++.+|||||+++|.......++.+|++|+|+| + ...+
T Consensus        30 ~d~GKSTL~~~L~------~~giTi~--~~~--~~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-~-~g~~   97 (370)
T 2elf_A           30 EKSGRTSLAANLG------KKGTSSD--ITM--YNNDKEGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-P-QGLD   97 (370)
T ss_dssp             TTSSHHHHHHTTS------EEEEESS--SEE--EEECSSSSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-T-TCCC
T ss_pred             CCCCHHHHHHHHH------hCCEEEE--eeE--EEEecCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-C-CCCc
Confidence            6899999999998      1112222  222  2344444578999999999998877888899999999999 4 3445


Q ss_pred             HHHHHHHHHHHHhCCCCceE-EEEEe-CCCCcccccCC--HHHHHHHHHHcC---CeEEE--EecCC---CCCHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIM-FLVAN-KVDLEEKRKVK--NEEGELYAQENG---LSFLE--TSAKS---AHNVNELFYE  148 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~-ivi~n-K~D~~~~~~~~--~~~~~~~~~~~~---~~~~~--~Sa~~---~~gi~~~~~~  148 (181)
                      .....++..+...   +.|. ++++| |+|+ +.....  .++...+++..+   +++++  +||++   ++|++++++.
T Consensus        98 ~qt~e~~~~~~~~---~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~gi~~L~~~  173 (370)
T 2elf_A           98 AHTGECIIALDLL---GFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWECISLNTNKSAKNPFEGVDELKAR  173 (370)
T ss_dssp             HHHHHHHHHHHHT---TCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTTTHHHHHHH
T ss_pred             HHHHHHHHHHHHc---CCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEEEecccccccCcCCCCHHHHHHH
Confidence            5566666665544   4566 88888 9998 432221  134445554443   68999  99999   9999999999


Q ss_pred             HHHHHHhh
Q 030225          149 IAKRLAEV  156 (181)
Q Consensus       149 l~~~~~~~  156 (181)
                      |.+.+...
T Consensus       174 l~~~~~~~  181 (370)
T 2elf_A          174 INEVAEKI  181 (370)
T ss_dssp             HHHHHHHH
T ss_pred             HHhhcccc
Confidence            99887643

>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=99.84  E-value=1.3e-21  Score=143.62  Aligned_cols=134  Identities=16%  Similarity=0.132  Sum_probs=108.8

Q ss_pred             HHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChh-HHHHHH
Q 030225            7 SLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMD-SFERAK   84 (181)
Q Consensus         7 tLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~   84 (181)
                      +|+.+++.+.+. ..+.||+|..+. ..+..++   ++.+||+  ++.++.+++.+++++|++|+|||++++. ++..+.
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~-~~~~~~~---~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~  105 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVE-YTPDETG---SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIID  105 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEE-EECCCSS---SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHH
T ss_pred             cEEEEEEcccccccCCCCCCccEEE-EEEcCCC---eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHH
Confidence            577788888888 788899995544 3322222   6789999  8889999999999999999999999987 688899


Q ss_pred             HHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC--CeEEEEecCCCCCHHHHHHHHHH
Q 030225           85 KWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG--LSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        85 ~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      .|+..+..   .++|+++|+||+|+.+.+.+  +++..+++.++  ++++++||++|.|++++|+++..
T Consensus       106 ~~l~~~~~---~~~piilv~NK~DL~~~~~v--~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          106 KFLVLAEK---NELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             HHHHHHHH---TTCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHSS
T ss_pred             HHHHHHHH---CCCCEEEEEeHHHcCCchhH--HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhcC
Confidence            99987754   47899999999999654432  44666777777  89999999999999999998753

>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=2.2e-20  Score=147.73  Aligned_cols=149  Identities=22%  Similarity=0.197  Sum_probs=98.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccc----cceeeeEEEEEE------------EECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQE----STIGAAFFTQVL------------SLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~----~t~~~~~~~~~~------------~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +|+|||||+++|++..+.....    ++++..+.....            ..+.....+.||||||+..|..++..+++.
T Consensus        14 ~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F~~~~~r~~~~   93 (594)
T 1g7s_A           14 VDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTLRKRGGAL   93 (594)
T ss_dssp             TTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTSBCSSSBS
T ss_pred             CCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHHHHHHHHHHhh
Confidence            5899999999999765433221    223322211100            000111258899999999999999999999


Q ss_pred             CcEEEEEEECCC---hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCC-------------HH----------
Q 030225           65 AAAAVVVYDITS---MDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK-------------NE----------  118 (181)
Q Consensus        65 ~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~-------------~~----------  118 (181)
                      +|++|+|+|+++   +.+++.+.    .+..   .+.|+++++||+|+.......             ..          
T Consensus        94 aD~aILVvDa~~Gv~~qT~e~l~----~l~~---~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~~~~v~~~~~e~i~  166 (594)
T 1g7s_A           94 ADLAILIVDINEGFKPQTQEALN----ILRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDTKVY  166 (594)
T ss_dssp             CSEEEEEEETTTCCCHHHHHHHH----HHHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEEECCCCccHhHHHHHH----HHHH---cCCeEEEEecccccccccccccCCchHHHHHHhHHHHHHHHHHHHH
Confidence            999999999998   55655433    2222   468999999999986422110             00          


Q ss_pred             HHHHHHHHcC---------------CeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          119 EGELYAQENG---------------LSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       119 ~~~~~~~~~~---------------~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +......+.+               ++++++||++|.|+++++++|...+...
T Consensus       167 ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~~~  219 (594)
T 1g7s_A          167 ELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQY  219 (594)
T ss_dssp             HHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhcccc
Confidence            1111122222               3799999999999999999999877643

>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=99.84  E-value=6.2e-21  Score=141.07  Aligned_cols=142  Identities=15%  Similarity=0.217  Sum_probs=111.6

Q ss_pred             HHHhhCCCCCc-------cccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECC-------
Q 030225           10 LRFVKGQFFDF-------QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDIT-------   75 (181)
Q Consensus        10 ~~l~~~~~~~~-------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~-------   75 (181)
                      .|+....+.++       +.+|+|+..  ..+.+  ..+.+.+||++|++.++..|..|+++++++|||||++       
T Consensus       127 ~Ri~~~~Y~PT~~Dil~~~~~TiGi~~--~~~~~--~~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~  202 (340)
T 4fid_A          127 KRIAMEDYVPTEEDLIHNRTKTTGIHE--YDFVV--KDIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLY  202 (340)
T ss_dssp             HHHSSTTCCCCHHHHHHSCCCCCSCEE--EEEES--SSCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC
T ss_pred             HHHhcccCCccccceeecccceeeeEE--EEEEe--eeeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccc
Confidence            45556666666       667788543  23333  4578899999999999999999999999999999998       


Q ss_pred             ---ChhHHHHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccc---------------cCCHHHHHHHHHHc---------
Q 030225           76 ---SMDSFERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKR---------------KVKNEEGELYAQEN---------  127 (181)
Q Consensus        76 ---~~~s~~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~---------------~~~~~~~~~~~~~~---------  127 (181)
                         +..++.+...|+..+.... ..+.|+++++||+|+.+.+               ....+++..++...         
T Consensus       203 e~~~~nr~~es~~~~~~i~~~~~~~~~piiLv~NK~DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~  282 (340)
T 4fid_A          203 EDGNTSRLTESIAVFKDIMTNEFLKGAVKLIFLNKMDLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEE  282 (340)
T ss_dssp             --CCSBHHHHHHHHHHHHHHCGGGTTSEEEEEEECHHHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEE
T ss_pred             cccccchHHHHHHHHHHHhhhhccCCCeEEEEEECchhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhh
Confidence               6788999999998887743 3689999999999985321               12456665555432         


Q ss_pred             ------------------CCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          128 ------------------GLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       128 ------------------~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                                        ++.++++||+++.+|+.+|+.+.+.+.+
T Consensus       283 ~~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv~~vF~~v~~~Il~  328 (340)
T 4fid_A          283 MNISGADGTANIEGAVNEKVYTNPTNATDGSNIKRVFMLAVDVIMK  328 (340)
T ss_dssp             SCC--------------CEEEEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             hhccccccccccccccCcceEEEEEEeeCcHHHHHHHHHHHHHHHH
Confidence                              3678999999999999999999999887

>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=1.8e-21  Score=149.52  Aligned_cols=157  Identities=17%  Similarity=0.183  Sum_probs=100.8

Q ss_pred             CCCchhHHHHHHhhC--CCCCccc---------------------------cceeeeEEEEEEEECCeEEEEEEEeCCCh
Q 030225            1 MGTGKTSLVLRFVKG--QFFDFQE---------------------------STIGAAFFTQVLSLNEVTIKFDIWDTAGQ   51 (181)
Q Consensus         1 ~~~GKttLl~~l~~~--~~~~~~~---------------------------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   51 (181)
                      +|+|||||+++|+..  .+.....                           ...|.++......++....++.+|||||+
T Consensus        15 ~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~~~~~~~~iiDtpG~   94 (435)
T 1jny_A           15 VDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKKYFFTIIDAPGH   94 (435)
T ss_dssp             TTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSSCEEEECCCSSS
T ss_pred             CCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEecCCeEEEEEECCCc
Confidence            589999999999864  2221100                           01122232333334445567999999999


Q ss_pred             hhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhC-----CCCceEEEEEeCCCCcccc------cCCHHHH
Q 030225           52 ERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQG-----NPNLIMFLVANKVDLEEKR------KVKNEEG  120 (181)
Q Consensus        52 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-----~~~~p~ivi~nK~D~~~~~------~~~~~~~  120 (181)
                      ..|...+..++..+|++|+|+|+++ .+|+....|..+..++.     ..-+|+++++||+|+.+..      +...++.
T Consensus        95 ~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~~~~~~~~~~~~~i  173 (435)
T 1jny_A           95 RDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPYDEKRYKEIVDQV  173 (435)
T ss_dssp             TTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCCccccHHHHHHHHHHH
Confidence            9999988999999999999999998 67775443322222210     1234689999999986521      1223455


Q ss_pred             HHHHHHcC-----CeEEEEecCCCCCHHHHHH--------HHHHHHHhhCC
Q 030225          121 ELYAQENG-----LSFLETSAKSAHNVNELFY--------EIAKRLAEVNP  158 (181)
Q Consensus       121 ~~~~~~~~-----~~~~~~Sa~~~~gi~~~~~--------~l~~~~~~~~~  158 (181)
                      ..+++..+     ++++++||++|+|+.++++        .|.+.+....+
T Consensus       174 ~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~~~~~~~g~~Ll~~l~~~~~  224 (435)
T 1jny_A          174 SKFMRSYGFNTNKVRFVPVVAPSGDNITHKSENMKWYNGPTLEEYLDQLEL  224 (435)
T ss_dssp             HHHHHHTTCCCTTCEEEECBTTTTBTTTBCCSSCTTCCSCCHHHHHTTCCC
T ss_pred             HHHHHHcCCCcCCceEEEeecccCccccccccccccccchhHHHHHhccCC
Confidence            66666665     6799999999999986654        45555544333

>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=99.84  E-value=1.1e-21  Score=147.29  Aligned_cols=154  Identities=15%  Similarity=0.232  Sum_probs=85.2

Q ss_pred             CCCchhHHHHHHhhCCCC-Ccc--------ccceeeeEEEEEEEECCeEEEEEEEeCCCh-------hhhhccch-----
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQ--------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ-------ERYHSLAP-----   59 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~--------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~-------~~~~~~~~-----   59 (181)
                      +|+|||||+++|++.... ..+        .++++.......+..++..+.+.+|||||.       +.+..++.     
T Consensus        46 ~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~~~~i~~~i~~~  125 (361)
T 2qag_A           46 SGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCFKTIISYIDEQ  125 (361)
T ss_dssp             TTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC--------------CCTHHHHHHH
T ss_pred             CCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHHHHHHHHHHHHH
Confidence            699999999998765432 222        145555544444555666788999999998       55666654     


Q ss_pred             --hhccCCcE-----------EEEEEECCC-hhHHHHHH-HHHHHHHHhCCCCceEEEEEeCCCCcccccCCH--HHHHH
Q 030225           60 --MYYRGAAA-----------AVVVYDITS-MDSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRKVKN--EEGEL  122 (181)
Q Consensus        60 --~~~~~~d~-----------~i~v~d~~~-~~s~~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~--~~~~~  122 (181)
                        .+++++++           .+++|++++ ..++..+. .|+..+    ..++|+++|+||+|+....++..  .++..
T Consensus       126 ~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l----~~~~piIlV~NK~Dl~~~~ev~~~k~~i~~  201 (361)
T 2qag_A          126 FERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI----HNKVNIVPVIAKADTLTLKERERLKKRILD  201 (361)
T ss_dssp             HHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHT----CS-SCEEEEEECCSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHh----ccCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence              45543322           234444443 34444443 333333    35789999999999976554433  45666


Q ss_pred             HHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCCC
Q 030225          123 YAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS  159 (181)
Q Consensus       123 ~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~  159 (181)
                      ++..++++++++||+++.| .+.|.++.+.+.+..|.
T Consensus       202 ~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~~~ip~  237 (361)
T 2qag_A          202 EIEEHNIKIYHLPDAESDE-DEDFKEQTRLLKASIPF  237 (361)
T ss_dssp             HTTCC-CCSCCCC----------CHHHHHHHHHTCSC
T ss_pred             HHHHCCCCEEeCCCcCCCc-chhHHHHHHHHHhcCCC
Confidence            7777789999999999999 99999999999887664

>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=99.83  E-value=8e-20  Score=140.63  Aligned_cols=151  Identities=18%  Similarity=0.144  Sum_probs=97.2

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccc------------hhhccCCcE
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLA------------PMYYRGAAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~------------~~~~~~~d~   67 (181)
                      ||||||||+|+|++.... ....+.++.+.....+.+++.  .+.+||++|...+....            ..+++.+|+
T Consensus       189 ~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~--~~~l~Dt~G~~~~~~~~~~~~e~~~~~~~~~~i~~ad~  266 (439)
T 1mky_A          189 PNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADV  266 (439)
T ss_dssp             TTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTE--EEEESSCSCC-----------CCSCCHHHHHHHHHCSE
T ss_pred             CCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCE--EEEEEECCCCccccccchhhHHHHHHHHHHHHHhhCCE
Confidence            799999999999987642 112233333333344556665  56799999974332211            235678999


Q ss_pred             EEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHH-HHHH----cCCeEEEEecCCCCCH
Q 030225           68 AVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL-YAQE----NGLSFLETSAKSAHNV  142 (181)
Q Consensus        68 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~-~~~~----~~~~~~~~Sa~~~~gi  142 (181)
                      +++|+|++++.+.... .+...+..   .+.|+++++||+|+.+......++... +...    .+++++++||++|.|+
T Consensus       267 vllv~d~~~~~~~~~~-~i~~~l~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv  342 (439)
T 1mky_A          267 VVIVLDATQGITRQDQ-RMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNI  342 (439)
T ss_dssp             EEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTBSH
T ss_pred             EEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCcEEEEECCCCCCH
Confidence            9999999876554432 22233322   468999999999987644433333322 2222    2578999999999999


Q ss_pred             HHHHHHHHHHHHhhC
Q 030225          143 NELFYEIAKRLAEVN  157 (181)
Q Consensus       143 ~~~~~~l~~~~~~~~  157 (181)
                      +++|+.+.+.+.+..
T Consensus       343 ~~l~~~i~~~~~~~~  357 (439)
T 1mky_A          343 DRMIDAMNLAYASYT  357 (439)
T ss_dssp             HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhc
Confidence            999999998776653

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.83  E-value=6.6e-21  Score=149.03  Aligned_cols=107  Identities=16%  Similarity=0.081  Sum_probs=73.3

Q ss_pred             CCCchhHHHHHHhhCCCCC-----------------cccc---ceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchh
Q 030225            1 MGTGKTSLVLRFVKGQFFD-----------------FQES---TIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM   60 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~-----------------~~~~---t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   60 (181)
                      ||+|||||+++|+......                 .+.+   ..|.++......+....+.+.||||||+..|...+..
T Consensus        22 ~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~i~liDTPG~~df~~~~~~  101 (528)
T 3tr5_A           22 PDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYKDYLINLLDTPGHADFTEDTYR  101 (528)
T ss_dssp             TTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEETTEEEEEECCCCSTTCCHHHHH
T ss_pred             CCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeCCEEEEEEECCCchhHHHHHHH
Confidence            6999999999997211100                 0000   0122222223333334567899999999999999999


Q ss_pred             hccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           61 YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        61 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      +++.+|++|+|+|++++........| ..+..   .++|+++++||+|+..
T Consensus       102 ~l~~aD~allVvDa~~g~~~~t~~~~-~~~~~---~~iPiivviNK~Dl~~  148 (528)
T 3tr5_A          102 TLTAVDSALMVIDAAKGVEPRTIKLM-EVCRL---RHTPIMTFINKMDRDT  148 (528)
T ss_dssp             GGGGCSEEEEEEETTTCSCHHHHHHH-HHHHT---TTCCEEEEEECTTSCC
T ss_pred             HHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHH---cCCCEEEEEeCCCCcc
Confidence            99999999999999987665554444 33332   4689999999999853

>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=99.83  E-value=7.8e-21  Score=146.04  Aligned_cols=108  Identities=19%  Similarity=0.149  Sum_probs=78.7

Q ss_pred             ECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc-
Q 030225           36 LNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK-  114 (181)
Q Consensus        36 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~-  114 (181)
                      +.....++.+|||||++.|...+..++..+|++|+|+|++++.. .....++..+...  .-+|+++++||+|+.+..+ 
T Consensus        99 ~~~~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~-~qt~~~l~~~~~~--~~~~iIvviNK~Dl~~~~~~  175 (434)
T 1zun_B           99 FSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQ-TQTRRHSYIASLL--GIKHIVVAINKMDLNGFDER  175 (434)
T ss_dssp             EECSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSC-HHHHHHHHHHHHT--TCCEEEEEEECTTTTTSCHH
T ss_pred             eecCCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCc-HHHHHHHHHHHHc--CCCeEEEEEEcCcCCcccHH
Confidence            33344678999999999998888888999999999999987542 3344455444433  2346999999999965211 


Q ss_pred             ---CCHHHHHHHHHHcC-----CeEEEEecCCCCCHHHHH
Q 030225          115 ---VKNEEGELYAQENG-----LSFLETSAKSAHNVNELF  146 (181)
Q Consensus       115 ---~~~~~~~~~~~~~~-----~~~~~~Sa~~~~gi~~~~  146 (181)
                         ....+...+++..+     ++++++||++|.|+.+++
T Consensus       176 ~~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~  215 (434)
T 1zun_B          176 VFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNKS  215 (434)
T ss_dssp             HHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSCC
T ss_pred             HHHHHHHHHHHHHHHhCCCccCceEEEEeccCCCCccccc
Confidence               12234556666677     679999999999998853

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.83  E-value=2.2e-21  Score=140.83  Aligned_cols=149  Identities=15%  Similarity=0.179  Sum_probs=84.7

Q ss_pred             CCCchhHHHHHHhhCCCCCc-c-------ccceeeeEEEEEEEECCeEEEEEEEeCCChh-------hhhccc-------
Q 030225            1 MGTGKTSLVLRFVKGQFFDF-Q-------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE-------RYHSLA-------   58 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~-~-------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~-------~~~~~~-------   58 (181)
                      ||+|||||+|+|++...... +       .+|++.+.....+..++..+.+.+|||||..       .+..+.       
T Consensus        17 ~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~~~~i~~~i~~~~   96 (274)
T 3t5d_A           17 SGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKF   96 (274)
T ss_dssp             TTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTTTHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhhHHHHHHHHHHHH
Confidence            69999999999887654433 2       4666666666666556666799999999962       122222       


Q ss_pred             hhhcc-------------CCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC--CHHHHHHH
Q 030225           59 PMYYR-------------GAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV--KNEEGELY  123 (181)
Q Consensus        59 ~~~~~-------------~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~--~~~~~~~~  123 (181)
                      ..++.             .+|+++++++.+.......-..++..+..    .+|+++|+||+|+....+.  ........
T Consensus        97 ~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~----~~pvi~V~nK~D~~~~~e~~~~~~~i~~~  172 (274)
T 3t5d_A           97 EDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE----KVNIIPLIAKADTLTPEECQQFKKQIMKE  172 (274)
T ss_dssp             HHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT----TSCEEEEESSGGGSCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc----cCCEEEEEeccCCCCHHHHHHHHHHHHHH
Confidence            22222             37799999987652222222334444422    7899999999998543222  12234455


Q ss_pred             HHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225          124 AQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       124 ~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +...+++++.+||.+++|+.+++++|.+.+
T Consensus       173 l~~~~i~v~~~sa~~~~~~~~l~~~l~~~~  202 (274)
T 3t5d_A          173 IQEHKIKIYEFPETDDEEENKLVKKIKDRL  202 (274)
T ss_dssp             HHHTTCCCCCC-----------CHHHHHTC
T ss_pred             HHHcCCeEEcCCCCCChhHHHHHHHHhcCC
Confidence            666789999999999999999999987654

>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=2.4e-21  Score=149.76  Aligned_cols=145  Identities=17%  Similarity=0.149  Sum_probs=96.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCC--------hhhhhccchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAG--------QERYHSLAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G--------~~~~~~~~~~~~~~~d~~i~v~   72 (181)
                      ||||||||+|+|.+..+.. ...+.|+++.............+.+|||||        +..+...+..++.++|++|+|+
T Consensus        32 ~nvGKSTL~n~l~~~~~~~-v~~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~Vv  110 (456)
T 4dcu_A           32 PNVGKSTIFNRIAGERISI-VEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMV  110 (456)
T ss_dssp             SSSSHHHHHHHHEEEEEC------------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHHHHHCSEEEEEE
T ss_pred             CCCcHHHHHHHHhCCCCcc-cCCCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhhHhhCCEEEEEE
Confidence            7999999999999877643 335667777767777776677899999999        7777778888999999999999


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCC-eEEEEecCCCCCHHHHHHHHHH
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGL-SFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      |..++-  .....|+..+...  .++|+++++||+|+.+...    ....+. ..++ .++++||++|.|+.++++++.+
T Consensus       111 D~~~~~--~~~d~~l~~~l~~--~~~pvilV~NK~D~~~~~~----~~~e~~-~lg~~~~~~iSA~~g~gv~~L~~~i~~  181 (456)
T 4dcu_A          111 NGREGV--TAADEEVAKILYR--TKKPVVLAVNKLDNTEMRA----NIYDFY-SLGFGEPYPISGTHGLGLGDLLDAVAE  181 (456)
T ss_dssp             ESSSCS--CHHHHHHHHHHTT--CCSCEEEEEECC-------------CCSG-GGSSSSEEECCTTTCTTHHHHHHHHHT
T ss_pred             eCCCCC--ChHHHHHHHHHHH--cCCCEEEEEECccchhhhh----hHHHHH-HcCCCceEEeecccccchHHHHHHHHh
Confidence            987632  2233344444333  5789999999999854211    111111 2333 4679999999999999999988


Q ss_pred             HHHh
Q 030225          152 RLAE  155 (181)
Q Consensus       152 ~~~~  155 (181)
                      .+..
T Consensus       182 ~l~~  185 (456)
T 4dcu_A          182 HFKN  185 (456)
T ss_dssp             TGGG
T ss_pred             hccc
Confidence            7654

>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=99.82  E-value=5.2e-21  Score=145.89  Aligned_cols=137  Identities=15%  Similarity=0.165  Sum_probs=94.9

Q ss_pred             CCCchhHHHHHHhhC--------CCCCc-------cccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCC
Q 030225            1 MGTGKTSLVLRFVKG--------QFFDF-------QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGA   65 (181)
Q Consensus         1 ~~~GKttLl~~l~~~--------~~~~~-------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   65 (181)
                      +|+|||||+++|.+.        .+...       .....|.++......++.....+.+|||||++.|...+..++..+
T Consensus        20 ~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~a   99 (405)
T 2c78_A           20 VDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGAAQM   99 (405)
T ss_dssp             TTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGHHHHHHHHTTC
T ss_pred             CCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCCeEEEEEECCChHHHHHHHHHHHHHC
Confidence            689999999999873        11110       001233334334444555556789999999999988888899999


Q ss_pred             cEEEEEEECCChhHHHHHHHHHHHHHHhCCCCce-EEEEEeCCCCccccc---CCHHHHHHHHHHcC-----CeEEEEec
Q 030225           66 AAAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRK---VKNEEGELYAQENG-----LSFLETSA  136 (181)
Q Consensus        66 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivi~nK~D~~~~~~---~~~~~~~~~~~~~~-----~~~~~~Sa  136 (181)
                      |++|+|+|++++.. .....|+..+...   +.| +++++||+|+.+..+   ....+...++...+     ++++++||
T Consensus       100 D~~ilVvda~~g~~-~qt~~~l~~~~~~---~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~SA  175 (405)
T 2c78_A          100 DGAILVVSAADGPM-PQTREHILLARQV---GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSA  175 (405)
T ss_dssp             SSEEEEEETTTCCC-HHHHHHHHHHHHT---TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCH
T ss_pred             CEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCEEEEEEECccccCcHHHHHHHHHHHHHHHHHhcccccCCCEEEccH
Confidence            99999999987543 3445566555443   567 889999999864211   11234555666665     68999999


Q ss_pred             CCCCC
Q 030225          137 KSAHN  141 (181)
Q Consensus       137 ~~~~g  141 (181)
                      ++|.|
T Consensus       176 ~~g~~  180 (405)
T 2c78_A          176 LLALE  180 (405)
T ss_dssp             HHHHH
T ss_pred             HHhhh
Confidence            99987

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.82  E-value=9.5e-21  Score=130.40  Aligned_cols=105  Identities=16%  Similarity=0.192  Sum_probs=79.6

Q ss_pred             CCCchhHHHHHHhhCCCCC---ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC----CcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFD---FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG----AAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~---~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~----~d~~i~v~d   73 (181)
                      +|||||||+++|.+..+..   .+.++++.         +...+.+.+||+||+..+...+..++.+    +|++|+|||
T Consensus        57 ~g~GKSsll~~l~~~~~~~~~~~~~~~~~~---------~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~d  127 (193)
T 2ged_A           57 QNSGKTSLLTLLTTDSVRPTVVSQEPLSAA---------DYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVD  127 (193)
T ss_dssp             TTSSHHHHHHHHHHSSCC---------------------CCCCTTCSEEEETTCCBSSCCHHHHHHHHGGGEEEEEEEEE
T ss_pred             CCCCHHHHHHHHhcCCCCcccccCCCceee---------eecCCeEEEEECCCCchHHHHHHHHHHhhcccCCEEEEEEE
Confidence            6899999999999987644   22222222         1244578899999999888888877776    899999999


Q ss_pred             CC-ChhHHHHHHHHHHHHHHh----CCCCceEEEEEeCCCCccccc
Q 030225           74 IT-SMDSFERAKKWVQELQRQ----GNPNLIMFLVANKVDLEEKRK  114 (181)
Q Consensus        74 ~~-~~~s~~~~~~~~~~~~~~----~~~~~p~ivi~nK~D~~~~~~  114 (181)
                      ++ +.+++..+..|+..+...    ...+.|+++++||+|+.+...
T Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~  173 (193)
T 2ged_A          128 STVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARP  173 (193)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCC
T ss_pred             CCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCCC
Confidence            99 899999998888877653    235899999999999965443

>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=99.82  E-value=2.2e-20  Score=142.08  Aligned_cols=150  Identities=15%  Similarity=0.147  Sum_probs=101.4

Q ss_pred             CCCchhHHHHHHhhCC-------CCCc-------cccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            1 MGTGKTSLVLRFVKGQ-------FFDF-------QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~-------~~~~-------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      +++|||||+++|.+..       +...       .....|.++......++.....+.+|||||+..|...+..++..+|
T Consensus        12 ~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD   91 (397)
T 1d2e_A           12 VDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMITGTAPLD   91 (397)
T ss_dssp             TTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHHHHHHTSSCCS
T ss_pred             CCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEeccCCeEEEEEECCChHHHHHHHHhhHhhCC
Confidence            5899999999998731       1100       0012233333333445555567889999999999888888999999


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCce-EEEEEeCCCCccccc---CCHHHHHHHHHHcC-----CeEEEEecC
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRK---VKNEEGELYAQENG-----LSFLETSAK  137 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivi~nK~D~~~~~~---~~~~~~~~~~~~~~-----~~~~~~Sa~  137 (181)
                      ++|+|+|+++....+ ...++..+..   .+.| +++++||+|+.+..+   ....+...+++..+     ++++++||+
T Consensus        92 ~~ilVvda~~g~~~q-t~e~l~~~~~---~~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~SA~  167 (397)
T 1d2e_A           92 GCILVVAANDGPMPQ-TREHLLLARQ---IGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSAL  167 (397)
T ss_dssp             EEEEEEETTTCSCHH-HHHHHHHHHH---TTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHH
T ss_pred             EEEEEEECCCCCCHH-HHHHHHHHHH---cCCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCCCcccCcEEEeehh
Confidence            999999999854332 2333344433   3567 688999999864211   12235556676665     589999999


Q ss_pred             CCCC----------HHHHHHHHHHHHH
Q 030225          138 SAHN----------VNELFYEIAKRLA  154 (181)
Q Consensus       138 ~~~g----------i~~~~~~l~~~~~  154 (181)
                      +|.|          +.++++.|.+.+.
T Consensus       168 ~g~n~~~~~~~~g~i~~Ll~~l~~~~p  194 (397)
T 1d2e_A          168 CALEQRDPELGLKSVQKLLDAVDTYIP  194 (397)
T ss_dssp             HHHTTCCTTTTHHHHHHHHHHHHHHSC
T ss_pred             hcccccCCCccCCcHHHHHHHHHHhCC
Confidence            9764          8888888877554

>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=99.80  E-value=1.8e-21  Score=150.81  Aligned_cols=146  Identities=21%  Similarity=0.219  Sum_probs=97.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +++|||||+++|.+..+.....+.++.+.....+..++  ..+.||||||++.|..++...+..+|++|+|+|++++...
T Consensus        13 vd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~~--~~i~~iDTPGhe~f~~~~~~~~~~aD~aILVVda~~g~~~   90 (501)
T 1zo1_I           13 VDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETEN--GMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMP   90 (501)
T ss_dssp             TTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTTS--SCCCEECCCTTTCCTTSBCSSSBSCSSEEEEEETTTBSCT
T ss_pred             CCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEECC--EEEEEEECCCcHHHHHHHHHHHhhCCEEEEEeecccCccH
Confidence            58999999999998665544334343333222233333  4678999999999999999999999999999999873211


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccc--cCCHH--HHHHHHHHcC--CeEEEEecCCCCCHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR--KVKNE--EGELYAQENG--LSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~--~~~~~--~~~~~~~~~~--~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                       ....++..+..   .+.|+++++||+|+.+..  .+...  +...+...++  ++++++||++|.|++++|++|...
T Consensus        91 -qT~e~l~~~~~---~~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~gI~eLle~I~~~  164 (501)
T 1zo1_I           91 -QTIEAIQHAKA---AQVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGTGIDELLDAILLQ  164 (501)
T ss_dssp             -TTHHHHHHHHH---TTCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEEEECCTTTCTTCTTHHHHTTTT
T ss_pred             -HHHHHHHHHHh---cCceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccEEEEeeeeccCcchhhhhhhhh
Confidence             11122223322   467899999999986421  11100  0000112222  689999999999999999999753

>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=99.80  E-value=1.3e-20  Score=145.93  Aligned_cols=104  Identities=18%  Similarity=0.264  Sum_probs=64.1

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChh---HHHH---HHHHHHHHHHhCCCCce-EEEEEeCCCCccc
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMD---SFER---AKKWVQELQRQGNPNLI-MFLVANKVDLEEK  112 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~~---~~~~~~~~~~~~~~~~p-~ivi~nK~D~~~~  112 (181)
                      ..++.||||||++.|..++...+..+|++|+|+|++++.   +|+.   ....+.....   .+.| +++++||+|+...
T Consensus       120 ~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~---~~vp~iivviNK~Dl~~~  196 (467)
T 1r5b_A          120 HRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLART---QGINHLVVVINKMDEPSV  196 (467)
T ss_dssp             SEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHH---TTCSSEEEEEECTTSTTC
T ss_pred             CeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHH---cCCCEEEEEEECccCCCc
Confidence            457899999999999998888899999999999999852   3321   2222222222   3566 8999999998531


Q ss_pred             c------cCCHHHHHHHHHHc-------CCeEEEEecCCCCCHHHHH
Q 030225          113 R------KVKNEEGELYAQEN-------GLSFLETSAKSAHNVNELF  146 (181)
Q Consensus       113 ~------~~~~~~~~~~~~~~-------~~~~~~~Sa~~~~gi~~~~  146 (181)
                      .      +....+...++...       +++++++||++|.|+.+++
T Consensus       197 ~~~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          197 QWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             cccHHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence            1      11223455666655       3569999999999998766

>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=99.80  E-value=3e-20  Score=143.54  Aligned_cols=107  Identities=12%  Similarity=0.136  Sum_probs=75.5

Q ss_pred             ECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChh---HHH---HHHHHHHHHHHhCCCCc-eEEEEEeCCC
Q 030225           36 LNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMD---SFE---RAKKWVQELQRQGNPNL-IMFLVANKVD  108 (181)
Q Consensus        36 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~---~~~~~~~~~~~~~~~~~-p~ivi~nK~D  108 (181)
                      ++....++.||||||+..|...+..++..+|++|+|+|++++.   +|+   ....++..+..   .+. ++++++||+|
T Consensus        80 ~~~~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~---~~v~~iivviNK~D  156 (458)
T 1f60_A           80 FETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT---LGVRQLIVAVNKMD  156 (458)
T ss_dssp             EECSSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH---TTCCEEEEEEECGG
T ss_pred             EecCCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH---cCCCeEEEEEEccc
Confidence            3444567999999999999988888999999999999998653   221   23333333332   244 4899999999


Q ss_pred             Ccccc----cCCHHHHHHHHHHcC-----CeEEEEecCCCCCHHHH
Q 030225          109 LEEKR----KVKNEEGELYAQENG-----LSFLETSAKSAHNVNEL  145 (181)
Q Consensus       109 ~~~~~----~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~gi~~~  145 (181)
                      +.+..    +....+...+++..+     ++++++||++|.|+.++
T Consensus       157 l~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          157 SVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             GGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             cccCCHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence            86311    112234555666665     68999999999998754

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.79  E-value=4.1e-20  Score=146.92  Aligned_cols=143  Identities=17%  Similarity=0.182  Sum_probs=92.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccc-----------------------------cceeeeEEEEEEEECCeEEEEEEEeCCCh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQE-----------------------------STIGAAFFTQVLSLNEVTIKFDIWDTAGQ   51 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~-----------------------------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~   51 (181)
                      ||+|||||+++|++........                             ...|+++......+.....++.||||||+
T Consensus       176 ~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~~~~~~iiDTPG~  255 (611)
T 3izq_1          176 VDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHRANFTIVDAPGH  255 (611)
T ss_dssp             SSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECSSCEEEEEECCSS
T ss_pred             CCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecCCceEEEEECCCC
Confidence            6899999999998653321110                             01133332233333444567899999999


Q ss_pred             hhhhccchhhccCCcEEEEEEECCChhH---H---HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCC----HHHHH
Q 030225           52 ERYHSLAPMYYRGAAAAVVVYDITSMDS---F---ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK----NEEGE  121 (181)
Q Consensus        52 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~---~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~----~~~~~  121 (181)
                      ..|...+..+++.+|++|+|+|++++..   +   ......+..+...  ..+|+++++||+|+.+..+..    ..+..
T Consensus       256 e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~l--gi~~iIVVvNKiDl~~~~~~~~~ei~~~l~  333 (611)
T 3izq_1          256 RDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL--GIHNLIIAMNKMDNVDWSQQRFEEIKSKLL  333 (611)
T ss_dssp             SCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTT--TCCEEEEEEECTTTTTTCHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHc--CCCeEEEEEecccccchhHHHHHHHHHHHH
Confidence            9999888899999999999999986421   1   1222222222222  235699999999986532221    22333


Q ss_pred             HHHHHcC-----CeEEEEecCCCCCHHHH
Q 030225          122 LYAQENG-----LSFLETSAKSAHNVNEL  145 (181)
Q Consensus       122 ~~~~~~~-----~~~~~~Sa~~~~gi~~~  145 (181)
                      .++...+     ++++++||++|.|+.++
T Consensus       334 ~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          334 PYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             HHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             HHHHhhcccccCccEEeeecccCCCcccc
Confidence            4444443     58999999999999876

>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=99.79  E-value=1.6e-19  Score=149.55  Aligned_cols=149  Identities=15%  Similarity=0.113  Sum_probs=99.8

Q ss_pred             CCCchhHHHHHHhhCC-------CCC-------ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCc
Q 030225            1 MGTGKTSLVLRFVKGQ-------FFD-------FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAA   66 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~-------~~~-------~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   66 (181)
                      +++|||||+++|.+..       +..       ....+.|+++....+.++....++.||||||++.|..++..++..+|
T Consensus       305 vDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHedF~~~mi~gas~AD  384 (1289)
T 3avx_A          305 VDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMITGAAQMD  384 (1289)
T ss_dssp             TTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHHHHHHHHHTSCCCS
T ss_pred             CCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHHHHHHHHHHHhhCC
Confidence            5899999999998641       000       01123344443333445555568899999999999888888999999


Q ss_pred             EEEEEEECCChhHHHHHHHHHHHHHHhCCCCce-EEEEEeCCCCccccc---CCHHHHHHHHHHcC-----CeEEEEecC
Q 030225           67 AAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRK---VKNEEGELYAQENG-----LSFLETSAK  137 (181)
Q Consensus        67 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivi~nK~D~~~~~~---~~~~~~~~~~~~~~-----~~~~~~Sa~  137 (181)
                      ++|+|+|++++.. .....++..+...   +.| +++++||+|+.+..+   ...++...++...+     ++++++||+
T Consensus       385 ~aILVVDAtdGv~-~QTrEhL~ll~~l---gIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~~~~~vp~IpvSAk  460 (1289)
T 3avx_A          385 GAILVVAATDGPM-PQTREHILLGRQV---GVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRGSAL  460 (1289)
T ss_dssp             EEEEEEETTTCSC-TTHHHHHHHHHHH---TCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTSCTTTCCEEECCST
T ss_pred             EEEEEEcCCccCc-HHHHHHHHHHHHc---CCCeEEEEEeecccccchhhHHHHHHHHHHHHHhccccccceeEEEEEec
Confidence            9999999998532 2344455555443   566 789999999964221   12234556666665     689999999


Q ss_pred             CC--------CCHHHHHHHHHHHH
Q 030225          138 SA--------HNVNELFYEIAKRL  153 (181)
Q Consensus       138 ~~--------~gi~~~~~~l~~~~  153 (181)
                      +|        .|+.++++.|.+.+
T Consensus       461 tG~ng~~~w~eGI~eLleaL~~~I  484 (1289)
T 3avx_A          461 KALEGDAEWEAKILELAGFLDSYI  484 (1289)
T ss_dssp             TTTTCCHHHHHHHHHHHHHHHHTS
T ss_pred             cCCCCCccccccchhhHhHHhhhc
Confidence            99        46888888877654

>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=99.78  E-value=3.6e-19  Score=124.05  Aligned_cols=146  Identities=14%  Similarity=0.149  Sum_probs=90.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh----------hhccchhhc---cCCcE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER----------YHSLAPMYY---RGAAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~~~~~~~---~~~d~   67 (181)
                      +|||||||+++|.+..+...+.++.|.++....+..++   .+.+||+||...          +......++   ..+++
T Consensus        35 ~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (210)
T 1pui_A           35 SNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQRALGEYLEKRQSLQG  111 (210)
T ss_dssp             TTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC------CCHHHHHHHHHHHHHHCTTEEE
T ss_pred             CCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHHHHHHHHHhhhcccE
Confidence            69999999999998775444556767655444444433   467999999732          222223344   57899


Q ss_pred             EEEEEECCChhHHHH--HHHHHHHHHHhCCCCceEEEEEeCCCCcccc--cCCHHHHHHHHHHcC--CeEEEEecCCCCC
Q 030225           68 AVVVYDITSMDSFER--AKKWVQELQRQGNPNLIMFLVANKVDLEEKR--KVKNEEGELYAQENG--LSFLETSAKSAHN  141 (181)
Q Consensus        68 ~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~--~~~~~~~~~~~~~~~--~~~~~~Sa~~~~g  141 (181)
                      +++++|++++.+...  +..|+    ..  .+.|+++++||+|+....  +.....+..++.+.+  +.++++||+++.|
T Consensus       112 ~~~v~d~~~~~~~~~~~~~~~~----~~--~~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~Sal~~~~  185 (210)
T 1pui_A          112 LVVLMDIRHPLKDLDQQMIEWA----VD--SNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQG  185 (210)
T ss_dssp             EEEEEETTSCCCHHHHHHHHHH----HH--TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEEEEECBTTTTBS
T ss_pred             EEEEEECCCCCchhHHHHHHHH----HH--cCCCeEEEEecccCCCchhHHHHHHHHHHHHHhcCCCCceEEEeecCCCC
Confidence            999999987654432  22332    22  367899999999975422  211234445555554  5678999999999


Q ss_pred             HHHHHHHHHHHHHh
Q 030225          142 VNELFYEIAKRLAE  155 (181)
Q Consensus       142 i~~~~~~l~~~~~~  155 (181)
                      +++++++|.+.+.+
T Consensus       186 ~~~l~~~l~~~~~~  199 (210)
T 1pui_A          186 VDKLRQKLDTWFSE  199 (210)
T ss_dssp             HHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999887654

>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=99.78  E-value=1.7e-18  Score=131.60  Aligned_cols=154  Identities=17%  Similarity=0.119  Sum_probs=103.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh----hhccchhh---ccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER----YHSLAPMY---YRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~~---~~~~d~~i~v~d   73 (181)
                      ||||||||+++|.+........+..+.....-.+..++ ...+.+||+||...    +..+...+   +..++.+++++|
T Consensus       166 ~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~~-~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~~lL~vvD  244 (416)
T 1udx_A          166 PNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSE-EERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLD  244 (416)
T ss_dssp             GGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSS-SCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEE
T ss_pred             CCCcHHHHHHHHHcCCccccCcccceecceeeEEEecC-cceEEEEeccccccchhhhhhhhHHHHHHHHHHHhhhEEeC
Confidence            69999999999987643211111111111122233333 24678999999632    22232222   457999999999


Q ss_pred             CCChhHHHHHHHHHHHHHHhC--CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           74 ITSMDSFERAKKWVQELQRQG--NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        74 ~~~~~s~~~~~~~~~~~~~~~--~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      ++ ...+..+..|.+++....  ....|.++++||+|+...  ....+....++..+++++.+||++++|+++++++|.+
T Consensus       245 ls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~--~~~~~l~~~l~~~g~~vi~iSA~~g~gi~eL~~~i~~  321 (416)
T 1udx_A          245 AA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE--EAVKALADALAREGLAVLPVSALTGAGLPALKEALHA  321 (416)
T ss_dssp             TT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH--HHHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHHH
T ss_pred             Cc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH--HHHHHHHHHHHhcCCeEEEEECCCccCHHHHHHHHHH
Confidence            98 566777777766665542  135789999999998653  2223344555556789999999999999999999999


Q ss_pred             HHHhhCC
Q 030225          152 RLAEVNP  158 (181)
Q Consensus       152 ~~~~~~~  158 (181)
                      .+.+...
T Consensus       322 ~l~~~~~  328 (416)
T 1udx_A          322 LVRSTPP  328 (416)
T ss_dssp             HHHTSCC
T ss_pred             HHHhccc
Confidence            9987654

>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=99.78  E-value=9.8e-19  Score=140.43  Aligned_cols=106  Identities=18%  Similarity=0.083  Sum_probs=73.0

Q ss_pred             CCCchhHHHHHHhhCCCCCcccc----------------ceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQES----------------TIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~----------------t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +|+|||||+++|++.........                ..+.++......+....+.+++|||||+..|...+..+++.
T Consensus        18 ~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~~~f~~~~~~~l~~   97 (665)
T 2dy1_A           18 AGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVGEIRGALEA   97 (665)
T ss_dssp             TTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGGHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCccchHHHHHHHHhh
Confidence            58999999999985332211101                11223333333343445788999999999998888999999


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      +|++++|+|+++..... ...++..+..   .+.|+++++||+|+.
T Consensus        98 ad~~ilVvD~~~g~~~q-t~~~~~~~~~---~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           98 ADAALVAVSAEAGVQVG-TERAWTVAER---LGLPRMVVVTKLDKG  139 (665)
T ss_dssp             CSEEEEEEETTTCSCHH-HHHHHHHHHH---TTCCEEEEEECGGGC
T ss_pred             cCcEEEEEcCCcccchh-HHHHHHHHHH---ccCCEEEEecCCchh
Confidence            99999999988754332 2344444443   368999999999985

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.77  E-value=9.8e-20  Score=133.52  Aligned_cols=110  Identities=15%  Similarity=0.128  Sum_probs=73.6

Q ss_pred             EEEEEEeCCChh-------------hhhccchhhccCCcEEE-EEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeC
Q 030225           41 IKFDIWDTAGQE-------------RYHSLAPMYYRGAAAAV-VVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANK  106 (181)
Q Consensus        41 ~~~~i~D~~G~~-------------~~~~~~~~~~~~~d~~i-~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK  106 (181)
                      ..+.+|||||..             .+..+...+++.++.+| +|+|+++.........++..+   ...+.|+++|+||
T Consensus       125 ~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~---~~~~~~~i~V~NK  201 (299)
T 2aka_B          125 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEV---DPQGQRTIGVITK  201 (299)
T ss_dssp             CSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHH---CTTCSSEEEEEEC
T ss_pred             CCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHh---CCCCCeEEEEEEc
Confidence            578999999953             34556677888888776 799998754433333344444   2347899999999


Q ss_pred             CCCcccccCCHHHHHHHHHH--cC-CeEEEEecCCCCCHHHHHHHHHHHH
Q 030225          107 VDLEEKRKVKNEEGELYAQE--NG-LSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       107 ~D~~~~~~~~~~~~~~~~~~--~~-~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +|+.+......+........  .+ .+++++||+++.|+++++++|.+..
T Consensus       202 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~~  251 (299)
T 2aka_B          202 LDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAER  251 (299)
T ss_dssp             GGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHHH
T ss_pred             cccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHHH
Confidence            99865443222222210001  12 3578999999999999999998743

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.73  E-value=8e-20  Score=144.84  Aligned_cols=138  Identities=18%  Similarity=0.180  Sum_probs=72.4

Q ss_pred             CCCchhHHHHHHhhCCCC-------------------------------CccccceeeeEEEEEEEECCeEEEEEEEeCC
Q 030225            1 MGTGKTSLVLRFVKGQFF-------------------------------DFQESTIGAAFFTQVLSLNEVTIKFDIWDTA   49 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-------------------------------~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~   49 (181)
                      +|+|||||+++|+.....                               .+.  ..|+++......+......+.|||||
T Consensus       186 ~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~--~~GiTid~~~~~~~~~~~~i~iiDTP  263 (592)
T 3mca_A          186 VDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEER--ARGVTMDVASTTFESDKKIYEIGDAP  263 (592)
T ss_dssp             SSSTHHHHHHHHHHHHHCC--------------------------------------------------------CCEEE
T ss_pred             CCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhh--cCCeeEEeeEEEEEeCCeEEEEEECC
Confidence            689999999999742110                               111  12333333333444455788999999


Q ss_pred             ChhhhhccchhhccCCcEEEEEEECCChh---HH---HHHHHHHHHHHHhCCCCce-EEEEEeCCCCcccccC----CHH
Q 030225           50 GQERYHSLAPMYYRGAAAAVVVYDITSMD---SF---ERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRKV----KNE  118 (181)
Q Consensus        50 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~---~~~~~~~~~~~~~~~~~~p-~ivi~nK~D~~~~~~~----~~~  118 (181)
                      |+..|...+...+..+|++|+|+|++++.   .+   .....++..+...   +.| +++++||+|+.+..+.    ...
T Consensus       264 Gh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~l---gip~iIvviNKiDl~~~~~~~~~~i~~  340 (592)
T 3mca_A          264 GHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRAL---GISEIVVSVNKLDLMSWSEDRFQEIKN  340 (592)
T ss_dssp             SSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHS---SCCCEEEEEECGGGGTTCHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHHc---CCCeEEEEEeccccccccHHHHHHHHH
Confidence            99999988888999999999999998642   11   1122233333332   344 8899999998642111    112


Q ss_pred             HHHHHH-HHcCC-----eEEEEecCCCCCHH
Q 030225          119 EGELYA-QENGL-----SFLETSAKSAHNVN  143 (181)
Q Consensus       119 ~~~~~~-~~~~~-----~~~~~Sa~~~~gi~  143 (181)
                      +...++ ...++     +++++||++|.|+.
T Consensus       341 el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          341 IVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             HHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             HHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence            333344 33444     79999999999998

>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=99.73  E-value=1.8e-17  Score=129.75  Aligned_cols=107  Identities=16%  Similarity=0.124  Sum_probs=69.4

Q ss_pred             CCCchhHHHHHHhhCCCCCcc--------------------ccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ--------------------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM   60 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~--------------------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   60 (181)
                      +|+|||||+++|+........                    .++.|.++......+....+.+.+|||||+..|......
T Consensus        22 ~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~liDTPG~~df~~~~~~  101 (529)
T 2h5e_A           22 PDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHDCLVNLLDTPGHEDFSEDTYR  101 (529)
T ss_dssp             TTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETTEEEEEECCCCSTTCCHHHHH
T ss_pred             CCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECCeEEEEEECCCChhHHHHHHH
Confidence            689999999999964211100                    012222222222333334568899999999998888888


Q ss_pred             hccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           61 YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        61 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      ++..+|++|+|+|++++.... ...++..+   ...+.|+++++||+|+..
T Consensus       102 ~l~~aD~~IlVvDa~~g~~~~-t~~~~~~~---~~~~ipiivviNK~Dl~~  148 (529)
T 2h5e_A          102 TLTAVDCCLMVIDAAKGVEDR-TRKLMEVT---RLRDTPILTFMNKLDRDI  148 (529)
T ss_dssp             GGGGCSEEEEEEETTTCSCHH-HHHHHHHH---TTTTCCEEEEEECTTSCC
T ss_pred             HHHHCCEEEEEEeCCccchHH-HHHHHHHH---HHcCCCEEEEEcCcCCcc
Confidence            999999999999998753221 22233332   224789999999999853

>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=99.73  E-value=8.7e-18  Score=135.44  Aligned_cols=107  Identities=20%  Similarity=0.157  Sum_probs=71.7

Q ss_pred             CCCchhHHHHHHhhCCCCCc----------ccc------ceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFDF----------QES------TIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~----------~~~------t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +|+|||||+++|+.......          ...      ..+.++......+....+.+++|||||+..|...+..+++.
T Consensus        21 ~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~  100 (691)
T 1dar_A           21 IDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDTPGHVDFTIEVERSMRV  100 (691)
T ss_dssp             TTSCHHHHHHHHHHHHCC----------------------------CCEEEEEETTEEEEEECCCSSTTCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEECCeEEEEEECcCccchHHHHHHHHHH
Confidence            68999999999984211100          000      11111222222222234688999999999998888999999


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      +|++|+|+|+++...+.....|.. +..   .+.|+++++||+|+..
T Consensus       101 aD~~ilVvDa~~g~~~~t~~~~~~-~~~---~~~p~ivviNKiD~~~  143 (691)
T 1dar_A          101 LDGAIVVFDSSQGVEPQSETVWRQ-AEK---YKVPRIAFANKMDKTG  143 (691)
T ss_dssp             CSEEEEEEETTTCSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTT
T ss_pred             CCEEEEEEECCCCcchhhHHHHHH-HHH---cCCCEEEEEECCCccc
Confidence            999999999998777666555543 333   3689999999999853

>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=99.72  E-value=1.2e-18  Score=127.82  Aligned_cols=153  Identities=14%  Similarity=0.153  Sum_probs=79.9

Q ss_pred             CCCchhHHHHHHhhC-CCCCcc--------ccceeeeEEEEEEEECCeEEEEEEEeCCCh-------hhhhccch-----
Q 030225            1 MGTGKTSLVLRFVKG-QFFDFQ--------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQ-------ERYHSLAP-----   59 (181)
Q Consensus         1 ~~~GKttLl~~l~~~-~~~~~~--------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~-------~~~~~~~~-----   59 (181)
                      +|||||||+++|.+. .++...        .++.+..........++....+.+||++|.       +.+..+..     
T Consensus        27 nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e~~~~l~~~l~~~  106 (301)
T 2qnr_A           27 SGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCFKTIISYIDEQ  106 (301)
T ss_dssp             TTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC-----------CTTHHHHHHHH
T ss_pred             CCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHHHHHHHHHHHHHH
Confidence            699999999998875 333222        122222221222222344568999999997       44444433     


Q ss_pred             --hhccC-------------CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc--CCHHHHHH
Q 030225           60 --MYYRG-------------AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK--VKNEEGEL  122 (181)
Q Consensus        60 --~~~~~-------------~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~--~~~~~~~~  122 (181)
                        .++.+             +++++|+.+.+. .+++.+..  ..+.... ...|+++|+||.|+....+  ...+++..
T Consensus       107 ~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~-~~Ld~~~~--~~l~~l~-~~~~iilV~~K~Dl~~~~e~~~~~~~~~~  182 (301)
T 2qnr_A          107 FERYLHDESGLNRRHIIDNRVHCCFYFISPFG-HGLKPLDV--AFMKAIH-NKVNIVPVIAKADTLTLKERERLKKRILD  182 (301)
T ss_dssp             HHHHHHHHTSSCCTTCCCCCCCEEEEEECSSS-SSCCHHHH--HHHHHHT-TTSCEEEEECCGGGSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCHHhhhhhhhhhhhheeeeecCcc-cCCCHHHH--HHHHHHH-hcCCEEEEEEeCCCCCHHHHHHHHHHHHH
Confidence              33322             334555555432 12332221  2233322 4678999999999865433  23456778


Q ss_pred             HHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225          123 YAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus       123 ~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +++.++++++++||+++ |++++|.++.+.+.+..|
T Consensus       183 ~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~~p  217 (301)
T 2qnr_A          183 EIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKASIP  217 (301)
T ss_dssp             HHHHTTCCCCCCC----------CHHHHHHHHTTCS
T ss_pred             HHHHcCCeEEecCCccc-cccHHHHHHHHHhhcCCC
Confidence            88889999999999999 999999999999987655

>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=99.72  E-value=2.4e-18  Score=129.31  Aligned_cols=108  Identities=15%  Similarity=0.121  Sum_probs=76.7

Q ss_pred             EEEEEeCCChhhh-------------hccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCC
Q 030225           42 KFDIWDTAGQERY-------------HSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVD  108 (181)
Q Consensus        42 ~~~i~D~~G~~~~-------------~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D  108 (181)
                      .+.+||+||...+             ..+...++.++|++|+|+|.++.+...  ..|+..+......+.|+++|+||+|
T Consensus       137 ~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--~~~~~l~~~~~~~~~~~i~V~nK~D  214 (360)
T 3t34_A          137 NLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--SDAIKISREVDPSGDRTFGVLTKID  214 (360)
T ss_dssp             SEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--CHHHHHHHHSCTTCTTEEEEEECGG
T ss_pred             CeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--HHHHHHHHHhcccCCCEEEEEeCCc
Confidence            5789999997654             456678899999999999876543221  2344444444445789999999999


Q ss_pred             CcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225          109 LEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +.+......+....+....+.+|+.++++++.++++.+.++..
T Consensus       215 l~~~~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~~~~~~~  257 (360)
T 3t34_A          215 LMDKGTDAVEILEGRSFKLKYPWVGVVNRSQADINKNVDMIAA  257 (360)
T ss_dssp             GCCTTCCSHHHHTTSSSCCSSCCEEECCCCHHHHHTTCCHHHH
T ss_pred             cCCCcccHHHHHcCccccccCCeEEEEECChHHhccCCCHHHH
Confidence            9765554444444444456788999999999888877665443

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.72  E-value=1.7e-17  Score=119.59  Aligned_cols=109  Identities=15%  Similarity=0.103  Sum_probs=72.5

Q ss_pred             CCCchhHHHHHHhhCCCCCcc-ccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhcc---------CCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ-ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR---------GAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~---------~~d~~i~   70 (181)
                      +|+|||||+++|++....... .+..+.......+..++  ..+.+|||||+..+......+++         ++|++++
T Consensus        45 ~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~liDTpG~~~~~~~~~~~~~~i~~~l~~~~~~~il~  122 (262)
T 3def_A           45 GGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGG--FTINIIDTPGLVEAGYVNHQALELIKGFLVNRTIDVLLY  122 (262)
T ss_dssp             TTSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEE
T ss_pred             CCCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEECC--eeEEEEECCCCCCcccchHHHHHHHHHHHhcCCCCEEEE
Confidence            689999999999987753221 12222223333344444  47889999999877665544443         7899999


Q ss_pred             EEECCChhHHHH-HHHHHHHHHHhCCC--CceEEEEEeCCCCccc
Q 030225           71 VYDITSMDSFER-AKKWVQELQRQGNP--NLIMFLVANKVDLEEK  112 (181)
Q Consensus        71 v~d~~~~~s~~~-~~~~~~~~~~~~~~--~~p~ivi~nK~D~~~~  112 (181)
                      |+|+++.. +.. ...|+..+......  ..|+++++||+|+...
T Consensus       123 V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~  166 (262)
T 3def_A          123 VDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPP  166 (262)
T ss_dssp             EEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCS
T ss_pred             EEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCC
Confidence            99987644 333 34667776664332  2489999999998543

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.71  E-value=4.8e-17  Score=131.22  Aligned_cols=111  Identities=14%  Similarity=0.158  Sum_probs=78.1

Q ss_pred             EEEEEeCCChhh---hhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHH
Q 030225           42 KFDIWDTAGQER---YHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNE  118 (181)
Q Consensus        42 ~~~i~D~~G~~~---~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~  118 (181)
                      .+.||||||...   ....+..++.++|++++|+|++++.+..+...|...+..   .+.|+++|+||+|+.....+..+
T Consensus       175 ~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~---~~~~iiiVlNK~Dl~~~~~~~~e  251 (695)
T 2j69_A          175 GIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKG---RGLTVFFLVNAWDQVRESLIDPD  251 (695)
T ss_dssp             TEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTT---SCCCEEEEEECGGGGGGGCSSTT
T ss_pred             CeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHh---hCCCEEEEEECcccccccccChh
Confidence            588999999754   234456788999999999999988777766655444422   36789999999998654311111


Q ss_pred             ----------HHHHH----HHH---------cCCeEEEEecC--------------CCCCHHHHHHHHHHHHHh
Q 030225          119 ----------EGELY----AQE---------NGLSFLETSAK--------------SAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       119 ----------~~~~~----~~~---------~~~~~~~~Sa~--------------~~~gi~~~~~~l~~~~~~  155 (181)
                                .....    ...         ...+++++||+              ++.|+.++++.|.+.+..
T Consensus       252 e~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~~~l~~  325 (695)
T 2j69_A          252 DVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNTFLTR  325 (695)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHHHHHHH
Confidence                      11111    111         12468999999              999999999999887754

>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=99.70  E-value=2.7e-16  Score=126.93  Aligned_cols=68  Identities=19%  Similarity=0.210  Sum_probs=54.1

Q ss_pred             eEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           39 VTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        39 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      ..+.++||||||+..|...+..+++.+|++|+|+|+++.........| ..+..   .+.|+++++||+|+.
T Consensus        80 ~~~~i~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~-~~~~~---~~ip~ilviNKiD~~  147 (704)
T 2rdo_7           80 EPHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVW-RQANK---YKVPRIAFVNKMDRM  147 (704)
T ss_pred             CceeEEEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHH-HHHHH---cCCCEEEEEeCCCcc
Confidence            347899999999999988889999999999999999987554444333 33322   368999999999974

>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=99.70  E-value=4.3e-17  Score=120.31  Aligned_cols=113  Identities=15%  Similarity=0.125  Sum_probs=71.0

Q ss_pred             EEEEEEeCCChhh-------------hhccchhhccCCcEEEEEEECCChhHH-HHHHHHHHHHHHhCCCCceEEEEEeC
Q 030225           41 IKFDIWDTAGQER-------------YHSLAPMYYRGAAAAVVVYDITSMDSF-ERAKKWVQELQRQGNPNLIMFLVANK  106 (181)
Q Consensus        41 ~~~~i~D~~G~~~-------------~~~~~~~~~~~~d~~i~v~d~~~~~s~-~~~~~~~~~~~~~~~~~~p~ivi~nK  106 (181)
                      ..+.+|||||...             +......++.++|++++|+|.++.... .....++..+   ...+.|+++|+||
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            4689999999643             445567788999999999997443211 1111222222   2247899999999


Q ss_pred             CCCcccccCCHHHHHHHHHHcCCeEEEEecC---C---CCCHHHHHHHHHHHHHhh
Q 030225          107 VDLEEKRKVKNEEGELYAQENGLSFLETSAK---S---AHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       107 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~---~---~~gi~~~~~~l~~~~~~~  156 (181)
                      +|+.+......+.........+..++++++.   +   +.|+.++++.+.+.+...
T Consensus       208 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~~~  263 (315)
T 1jwy_B          208 LDLMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSEILYFKNH  263 (315)
T ss_dssp             TTSSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHHHTC
T ss_pred             cccCCcchHHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHHHHHHhCC
Confidence            9987544322222221111122566666655   4   689999999998877654

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.69  E-value=6.9e-17  Score=130.25  Aligned_cols=107  Identities=18%  Similarity=0.134  Sum_probs=70.9

Q ss_pred             CCCchhHHHHHHhhC--CCCC-----------cccc---ceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKG--QFFD-----------FQES---TIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~--~~~~-----------~~~~---t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +|+|||||+++|+..  .+..           .+.+   ..++++......+....+.+++|||||+..|...+..+++.
T Consensus        19 ~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~   98 (693)
T 2xex_A           19 IDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWEGHRVNIIDTPGHVDFTVEVERSLRV   98 (693)
T ss_dssp             GGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEETTEEEEEECCCCCSSCCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEECCeeEEEEECcCCcchHHHHHHHHHH
Confidence            589999999999852  2110           0000   01111111112222234678999999999888888889999


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      +|++|+|+|+++.........|. .+..   .+.|+++++||+|+..
T Consensus        99 aD~~llVvDa~~g~~~~~~~~~~-~~~~---~~~p~ilviNK~Dl~~  141 (693)
T 2xex_A           99 LDGAVTVLDAQSGVEPQTETVWR-QATT---YGVPRIVFVNKMDKLG  141 (693)
T ss_dssp             CSEEEEEEETTTBSCHHHHHHHH-HHHH---TTCCEEEEEECTTSTT
T ss_pred             CCEEEEEECCCCCCcHHHHHHHH-HHHH---cCCCEEEEEECCCccc
Confidence            99999999999876666555443 3433   3689999999999853

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.69  E-value=6.7e-17  Score=116.96  Aligned_cols=111  Identities=11%  Similarity=0.092  Sum_probs=71.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccch-------hh--ccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAP-------MY--YRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~-------~~--~~~~d~~i~v   71 (181)
                      +|+|||||+|+|++..+.... ++.+.++......+......+.+|||||...+.....       .+  ...+|+++||
T Consensus        48 ~g~GKSSLin~l~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~d~il~v  126 (270)
T 1h65_A           48 GGVGKSSTVNSIIGERVVSIS-PFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYV  126 (270)
T ss_dssp             TTSSHHHHHHHHHTSCCSCCC-SSSCCCSSCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEE
T ss_pred             CCCCHHHHHHHHhCCCccccc-CCCCcceeeEEEEEeeCCeEEEEEECCCCCCCccchHHHHHHHHHHhhcCCCCEEEEE
Confidence            699999999999987753221 2223333233333333446788999999866543322       11  3469999999


Q ss_pred             EECCChhHHHH-HHHHHHHHHHhCCCC--ceEEEEEeCCCCcccc
Q 030225           72 YDITSMDSFER-AKKWVQELQRQGNPN--LIMFLVANKVDLEEKR  113 (181)
Q Consensus        72 ~d~~~~~s~~~-~~~~~~~~~~~~~~~--~p~ivi~nK~D~~~~~  113 (181)
                      +|++.. ++.. ...|+..+.......  .|+++|+||+|+....
T Consensus       127 ~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~  170 (270)
T 1h65_A          127 DRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPD  170 (270)
T ss_dssp             EESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGG
T ss_pred             EeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcC
Confidence            998653 3433 246777776543322  6999999999986543

>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=99.68  E-value=4.5e-17  Score=123.93  Aligned_cols=148  Identities=15%  Similarity=0.193  Sum_probs=74.1

Q ss_pred             CCCchhHHHHHHhhCCCCCc-c-------ccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh-------c---------
Q 030225            1 MGTGKTSLVLRFVKGQFFDF-Q-------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH-------S---------   56 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~-~-------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~---------   56 (181)
                      +|||||||+++|++..+... .       .++++.......+...+....+.+||++|...+.       .         
T Consensus        40 sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~~~~~i~~~i~~~~  119 (418)
T 2qag_C           40 SGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKF  119 (418)
T ss_dssp             TTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC-----------CHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchhhHHHHHHHHHHHH
Confidence            69999999999998765311 1       1223222222222223344578999999975431       1         


Q ss_pred             ---------cchhhccCCcEEEEEEECCCh-hHHHHHH-HHHHHHHHhCCCCceEEEEEeCCCCcccccCCH--HHHHHH
Q 030225           57 ---------LAPMYYRGAAAAVVVYDITSM-DSFERAK-KWVQELQRQGNPNLIMFLVANKVDLEEKRKVKN--EEGELY  123 (181)
Q Consensus        57 ---------~~~~~~~~~d~~i~v~d~~~~-~s~~~~~-~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~--~~~~~~  123 (181)
                               +...++.++++.+++|+.... .+++... .|+..+.    .+.|+++|+||+|+....++..  .++..+
T Consensus       120 ~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~----~~v~iIlVinK~Dll~~~ev~~~k~~i~~~  195 (418)
T 2qag_C          120 EDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH----EKVNIIPLIAKADTLTPEECQQFKKQIMKE  195 (418)
T ss_dssp             HHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT----TTSEEEEEEESTTSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh----ccCcEEEEEEcccCccHHHHHHHHHHHHHH
Confidence                     123455666654555544432 2343332 4555552    3689999999999866544443  566777


Q ss_pred             HHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225          124 AQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus       124 ~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      +..++++++++|+.++.++.++|..+...
T Consensus       196 ~~~~~i~~~~~sa~~~~~v~~~~~~l~~~  224 (418)
T 2qag_C          196 IQEHKIKIYEFPETDDEEENKLVKKIKDR  224 (418)
T ss_dssp             HHHHTCCCCCCC-----------------
T ss_pred             HHHcCCeEEeCCCCCCcCHHHHHHHHHhh
Confidence            88889999999999999999888777653

>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=99.67  E-value=2.8e-17  Score=124.60  Aligned_cols=77  Identities=22%  Similarity=0.058  Sum_probs=40.3

Q ss_pred             CCCchhHHHHHHhhCCCCCcccc--ceeeeEEEEEEE-------------------ECC-eEEEEEEEeCCChhh----h
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQES--TIGAAFFTQVLS-------------------LNE-VTIKFDIWDTAGQER----Y   54 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~--t~~~~~~~~~~~-------------------~~~-~~~~~~i~D~~G~~~----~   54 (181)
                      ||||||||+|+|.+........|  |.........+.                   +++ ..+++.+||+||...    .
T Consensus         9 pnvGKSTL~n~L~~~~~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG~~~~a~~~   88 (397)
T 1wxq_A            9 PNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAGLVPGAHEG   88 (397)
T ss_dssp             TTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC---------
T ss_pred             CCCCHHHHHHHHHCCCCcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCCcccchhhh
Confidence            79999999999998763211111  111111111111                   122 257899999999753    2


Q ss_pred             hccch---hhccCCcEEEEEEECCCh
Q 030225           55 HSLAP---MYYRGAAAAVVVYDITSM   77 (181)
Q Consensus        55 ~~~~~---~~~~~~d~~i~v~d~~~~   77 (181)
                      ..+..   .+++++|++++|+|+++.
T Consensus        89 ~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           89 RGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             ------CCCSSTTCSEEEEEEETTCC
T ss_pred             hhHHHHHHHHHhcCCEEEEEEecccc
Confidence            22333   346899999999999875

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.67  E-value=7.9e-17  Score=113.10  Aligned_cols=105  Identities=18%  Similarity=0.115  Sum_probs=70.2

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHH
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG  120 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~  120 (181)
                      +.+.+||++|.....   ..+....+.+++|+|+++....  ...+...      .+.|.++++||+|+.+......++.
T Consensus       109 ~d~iiidt~G~~~~~---~~~~~~~~~~i~vvd~~~~~~~--~~~~~~~------~~~~~iiv~NK~Dl~~~~~~~~~~~  177 (221)
T 2wsm_A          109 CDLLLIENVGNLICP---VDFDLGENYRVVMVSVTEGDDV--VEKHPEI------FRVADLIVINKVALAEAVGADVEKM  177 (221)
T ss_dssp             CSEEEEEEEEBSSGG---GGCCCSCSEEEEEEEGGGCTTH--HHHCHHH------HHTCSEEEEECGGGHHHHTCCHHHH
T ss_pred             CCEEEEeCCCCCCCC---chhccccCcEEEEEeCCCcchh--hhhhhhh------hhcCCEEEEecccCCcchhhHHHHH
Confidence            467899999851100   0111256889999998865321  1111111      1467899999999865444455666


Q ss_pred             HHHHHHc--CCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          121 ELYAQEN--GLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       121 ~~~~~~~--~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ...++..  +++++++||++|.|+++++++|.+.+...
T Consensus       178 ~~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~~  215 (221)
T 2wsm_A          178 KADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNVH  215 (221)
T ss_dssp             HHHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC--
T ss_pred             HHHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHH
Confidence            6666654  47899999999999999999999877554

>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=4.7e-18  Score=119.77  Aligned_cols=144  Identities=20%  Similarity=0.216  Sum_probs=85.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEE------------EEEEEEC-CeE-------------------EEEEEEeC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFF------------TQVLSLN-EVT-------------------IKFDIWDT   48 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~------------~~~~~~~-~~~-------------------~~~~i~D~   48 (181)
                      +|||||||+++|+...+...+.++++.++.            ...+.++ +..                   ..+.++|+
T Consensus        47 ~gvGKTtl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~~~~d~~~id~  126 (226)
T 2hf9_A           47 IGSGKTLLIEKLIDNLKDKYKIACIAGDVIAKFDAERMEKHGAKVVPLNTGKECHLDAHLVGHALEDLNLDEIDLLFIEN  126 (226)
T ss_dssp             TTSSHHHHHHHHHHHHTTTCCEEEEEEETTTHHHHHHHHTTTCEEEEEECTTCSSCCHHHHHHHHTTSCGGGCSEEEEEC
T ss_pred             CCCCHHHHHHHHHHHhccCCeEEEEECCCCCCccHHHHHhcCCcEEEecCCceEeccHHHHHHHHHHHhcCCCCEEEEeC
Confidence            699999999999987665545556554432            1222222 111                   13445555


Q ss_pred             CChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHc-
Q 030225           49 AGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQEN-  127 (181)
Q Consensus        49 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~-  127 (181)
                      +|.....   ..+-...+.++.++|.........  .....      ...|.++++||+|+.+......++...+++.. 
T Consensus       127 ~g~i~~~---~s~~~~~~~~~~v~~~~~~~~~~~--~~~~~------~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~  195 (226)
T 2hf9_A          127 VGNLICP---ADFDLGTHKRIVVISTTEGDDTIE--KHPGI------MKTADLIVINKIDLADAVGADIKKMENDAKRIN  195 (226)
T ss_dssp             CSCSSGG---GGCCCSCSEEEEEEEGGGCTTTTT--TCHHH------HTTCSEEEEECGGGHHHHTCCHHHHHHHHHHHC
T ss_pred             CCCccCc---chhhhccCcEEEEEecCcchhhHh--hhhhH------hhcCCEEEEeccccCchhHHHHHHHHHHHHHhC
Confidence            5521000   011112344566676432211100  00011      13678999999999765445666777777655 


Q ss_pred             -CCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          128 -GLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       128 -~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                       +++++++||++|.|++++|++|.+.+..
T Consensus       196 ~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          196 PDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             TTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence             5789999999999999999999987764

>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=99.59  E-value=2.1e-14  Score=107.18  Aligned_cols=136  Identities=16%  Similarity=0.053  Sum_probs=81.1

Q ss_pred             CCCchhHHHHHHhhCCCCCcccc--ceeeeEEEEEEEECCe---------------EEEEEEEeCCChhhhh----ccch
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQES--TIGAAFFTQVLSLNEV---------------TIKFDIWDTAGQERYH----SLAP   59 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~--t~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~~~----~~~~   59 (181)
                      ||||||||+|+|.+........|  |++....  .+.+++.               ...+.+||+||...+.    .+..
T Consensus        11 pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g--~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a~~~~gl~~   88 (363)
T 1jal_A           11 PNVGKSTLFNALTKAGIEAANYPFCTIEPNTG--VVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASKGEGLGN   88 (363)
T ss_dssp             TTSSHHHHHHHHHHTC------CCCCCCCCSS--EEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHHHGGGTC
T ss_pred             CCCCHHHHHHHHHCCCCcccCCCCceECceEE--EEecCCcccceeeeeecccceeeeEEEEEECCCCcccccccchHHH
Confidence            79999999999998764222112  2222221  2233332               2578999999986542    2332


Q ss_pred             ---hhccCCcEEEEEEECCCh----------hHHHHHHHHHHH-------------------------------------
Q 030225           60 ---MYYRGAAAAVVVYDITSM----------DSFERAKKWVQE-------------------------------------   89 (181)
Q Consensus        60 ---~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~-------------------------------------   89 (181)
                         .+++++|++++|+|+++.          +.+..+..+..+                                     
T Consensus        89 ~fl~~ir~ad~il~VvD~~~~~~v~~v~~~~dp~~d~~~i~~EL~~~d~~~~~k~~~~~~k~~k~g~~~~~~~~~~l~~~  168 (363)
T 1jal_A           89 KFLANIRETDAIGHVVRCFENDDIVHVAGKIDPLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAKFELSVMEKI  168 (363)
T ss_dssp             CHHHHHHTCSEEEEEEECSCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCeEEEEEecCCCCceeeecCCcChHHHHHHHHHHHHhhhHHHHhhHHHHHHHHhhccchhHHHHHHHHHHH
Confidence               347899999999999862          222222211111                                     


Q ss_pred             ---HHH-------------------h-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCC
Q 030225           90 ---LQR-------------------Q-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKS  138 (181)
Q Consensus        90 ---~~~-------------------~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  138 (181)
                         +..                   . ....+|+++++|+.|..-...........++...+.+++.+||+.
T Consensus       169 ~~~L~~~~~~~~~~~~~~e~~~l~~~~llt~KPvi~v~N~~e~~~~~n~~~~~v~~~~~~~~~~~i~~sA~~  240 (363)
T 1jal_A          169 LPVLENAGMIRSVGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAI  240 (363)
T ss_dssp             HHHHHTTCCGGGSCCCHHHHHHHGGGCCSTTSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHHH
T ss_pred             HHHHhcCCCccccCCCHHHHHHHHHhhcccCCcEEEEEecccccccccHHHHHHHHHHHHcCCCEEEechHH
Confidence               100                   0 113599999999998632122234556778888899999999653

>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=99.59  E-value=1e-15  Score=114.79  Aligned_cols=103  Identities=17%  Similarity=0.151  Sum_probs=69.9

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHH
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG  120 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~  120 (181)
                      +.+.||||||...   .....+..+|++++|+|....+....+..        .....|.++|+||+|+....... ...
T Consensus       172 ~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~~--------~~~~~p~ivVlNK~Dl~~~~~~~-~~~  239 (355)
T 3p32_A          172 FDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIKK--------GVLELADIVVVNKADGEHHKEAR-LAA  239 (355)
T ss_dssp             CCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCCT--------TSGGGCSEEEEECCCGGGHHHHH-HHH
T ss_pred             CCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHHH--------hHhhcCCEEEEECCCCcChhHHH-HHH
Confidence            5788999999432   22344588999999999876554322211        11346899999999985432211 111


Q ss_pred             HHHHHH----------cCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          121 ELYAQE----------NGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       121 ~~~~~~----------~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ..+...          ++.+++.+||++|+|+++++++|.+.+..
T Consensus       240 ~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          240 RELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             HHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            122211          25789999999999999999999998765

>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=99.58  E-value=9.4e-16  Score=105.03  Aligned_cols=107  Identities=5%  Similarity=-0.082  Sum_probs=70.1

Q ss_pred             CCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHH---HHHHhC--CCCceEEEEEeCC-CCcccccCCHHHHH
Q 030225           48 TAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQ---ELQRQG--NPNLIMFLVANKV-DLEEKRKVKNEEGE  121 (181)
Q Consensus        48 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~---~~~~~~--~~~~p~ivi~nK~-D~~~~~~~~~~~~~  121 (181)
                      .+|+...+.+|+.||.++|++|||+|++|.+.++ .+..+.   .+....  ..+.|++|++||. |+.+  .....+..
T Consensus       109 ~GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~--Ams~~EI~  185 (227)
T 3l82_B          109 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVK--RMPCFYLA  185 (227)
T ss_dssp             --------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSC--BCCHHHHH
T ss_pred             cCcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccC--CCCHHHHH
Confidence            4588899999999999999999999999976543 444332   222221  2578999999995 6643  33334433


Q ss_pred             HHHH----HcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225          122 LYAQ----ENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       122 ~~~~----~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ....    .+.+.+..|||.+|+|+.+.++||.+.+..++
T Consensus       186 e~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~~k~  225 (227)
T 3l82_B          186 HELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESKR  225 (227)
T ss_dssp             HHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTTTC-
T ss_pred             HHcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHHhhc
Confidence            3211    24578999999999999999999987765443

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.58  E-value=2.2e-14  Score=112.80  Aligned_cols=104  Identities=19%  Similarity=0.147  Sum_probs=71.1

Q ss_pred             CCCchhHHHHHHhhCCCC----------------------CccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccc
Q 030225            1 MGTGKTSLVLRFVKGQFF----------------------DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLA   58 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~----------------------~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~   58 (181)
                      .++|||||..+|+.....                      .+...  |+++.+....+.+..++++|+||||+.+|....
T Consensus        40 vdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreR--GITI~s~~~~~~~~~~~iNlIDTPGHvDF~~Ev  117 (548)
T 3vqt_A           40 PDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERER--GISVTTSVMQFPYRDRVVNLLDTPGHQDFSEDT  117 (548)
T ss_dssp             TTSSHHHHHHHHHHHTTCHHHHHHHHHC----------------------CTTTEEEEEETTEEEEEECCCCGGGCSHHH
T ss_pred             CCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHC--CCcEeeceEEEEECCEEEEEEeCCCcHHHHHHH
Confidence            479999999999732211                      11111  222223333444455789999999999999999


Q ss_pred             hhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           59 PMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        59 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      ...++-+|++|+|+|+.++--.....-| ....++   +.|.++++||+|..
T Consensus       118 ~raL~~~DgAvlVvda~~GV~~qT~~v~-~~a~~~---~lp~i~fINK~Dr~  165 (548)
T 3vqt_A          118 YRVLTAVDSALVVIDAAKGVEAQTRKLM-DVCRMR---ATPVMTFVNKMDRE  165 (548)
T ss_dssp             HHHHHSCSEEEEEEETTTBSCHHHHHHH-HHHHHT---TCCEEEEEECTTSC
T ss_pred             HHHHHhcCceEEEeecCCCcccccHHHH-HHHHHh---CCceEEEEecccch
Confidence            9999999999999999975443333333 444443   68999999999974

>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=99.58  E-value=7e-15  Score=107.90  Aligned_cols=97  Identities=19%  Similarity=0.164  Sum_probs=78.9

Q ss_pred             hhhhhccchhhccCCcEEEEEEECCChh-HHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCC-HHHHHHHHHHcC
Q 030225           51 QERYHSLAPMYYRGAAAAVVVYDITSMD-SFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK-NEEGELYAQENG  128 (181)
Q Consensus        51 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~-~~~~~~~~~~~~  128 (181)
                      ++.+..+.+.+++++|++++|+|++++. ++..+.+|+..+..   .++|+++|+||+|+.+..++. .++...+.+..+
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            5667778888999999999999999986 78888999887654   478999999999996543222 344556666778


Q ss_pred             CeEEEEecCCCCCHHHHHHHHH
Q 030225          129 LSFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus       129 ~~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      ++++++||++++|++++++.+.
T Consensus       143 ~~~~~~SA~~g~gi~~L~~~l~  164 (302)
T 2yv5_A          143 YDVLKVSAKTGEGIDELVDYLE  164 (302)
T ss_dssp             CEEEECCTTTCTTHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHhhcc
Confidence            9999999999999999998764

>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=99.56  E-value=5.4e-16  Score=116.23  Aligned_cols=108  Identities=12%  Similarity=0.106  Sum_probs=64.9

Q ss_pred             EEEEEEeCCChh-------------hhhccchhhccCCc-EEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeC
Q 030225           41 IKFDIWDTAGQE-------------RYHSLAPMYYRGAA-AAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANK  106 (181)
Q Consensus        41 ~~~~i~D~~G~~-------------~~~~~~~~~~~~~d-~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK  106 (181)
                      ..+.||||||..             .+..+...|+.+++ ++++|.|++..-.-..   ++..+......+.|+++|+||
T Consensus       130 ~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~---~~~i~~~~~~~~~~~i~V~NK  206 (353)
T 2x2e_A          130 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSD---ALKVAKEVDPQGQRTIGVITK  206 (353)
T ss_dssp             CSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCH---HHHHHHHHCTTCTTEEEEEEC
T ss_pred             CCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhH---HHHHHHHhCcCCCceEEEecc
Confidence            468999999952             34445566676555 5555666654221111   222233333357899999999


Q ss_pred             CCCcccccCCHHHHHH--HHHHcC-CeEEEEecCCCCCHHHHHHHHHH
Q 030225          107 VDLEEKRKVKNEEGEL--YAQENG-LSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus       107 ~D~~~~~~~~~~~~~~--~~~~~~-~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +|+.+...........  +....+ .+++.+||+++.|++++++++..
T Consensus       207 ~Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          207 LDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             GGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             ccccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            9986543322221111  000112 25678999999999999999976

>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=99.55  E-value=2.7e-14  Score=102.59  Aligned_cols=113  Identities=15%  Similarity=0.061  Sum_probs=70.1

Q ss_pred             EEEEEEeCCChhhhhccch------hhccCCcEEEEEEECCCh---hHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           41 IKFDIWDTAGQERYHSLAP------MYYRGAAAAVVVYDITSM---DSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~------~~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      +.+.||||||.........      ..+.+ +++++++|+...   ..+.....+......  ..+.|+++++||+|+..
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~--~~~~p~~iv~NK~D~~~  185 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDL--RLGATTIPALNKVDLLS  185 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHH--HHTSCEEEEECCGGGCC
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhc--ccCCCeEEEEecccccc
Confidence            5789999999876543322      24466 899999987643   222222211111111  13578999999999864


Q ss_pred             cccC--------CHHHHH-H-----------------HHHHcC--CeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          112 KRKV--------KNEEGE-L-----------------YAQENG--LSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       112 ~~~~--------~~~~~~-~-----------------~~~~~~--~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ..+.        ...... .                 ++.+++  .+++++||++++|+++++++|.+.+...
T Consensus       186 ~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~~~  258 (262)
T 1yrb_A          186 EEEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYCTC  258 (262)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhccc
Confidence            3221        000000 0                 123433  4799999999999999999999877653

>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=99.54  E-value=8.3e-15  Score=120.43  Aligned_cols=70  Identities=21%  Similarity=0.218  Sum_probs=58.5

Q ss_pred             CCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           37 NEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        37 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      ++..+.++||||||+.+|...+..+++.+|++|+|+|++++.++.....|.... .   .+.|+++++||+|+.
T Consensus        94 ~~~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~-~---~~~p~ilviNK~D~~  163 (842)
T 1n0u_A           94 DGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQAL-G---ERIKPVVVINKVDRA  163 (842)
T ss_dssp             CSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHH-H---TTCEEEEEEECHHHH
T ss_pred             cCCCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHH-H---cCCCeEEEEECCCcc
Confidence            345789999999999999999999999999999999999987777665554333 2   368999999999985

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.52  E-value=3.9e-15  Score=111.31  Aligned_cols=103  Identities=12%  Similarity=0.074  Sum_probs=62.8

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHH
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG  120 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~  120 (181)
                      +.+.++||+|....   .......+|++++|+|++++.....+..   .+     ...|.++++||+|+.+.... ....
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            46789999995311   2345678999999999987543221111   11     24578999999998542111 0111


Q ss_pred             HHHHH----------HcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          121 ELYAQ----------ENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       121 ~~~~~----------~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ..+..          .++.+++.+||++++|+++++++|.+.+..
T Consensus       235 ~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~~  279 (349)
T 2www_A          235 AEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQDL  279 (349)
T ss_dssp             HHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            12211          124578999999999999999999887643

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.50  E-value=5.7e-15  Score=116.27  Aligned_cols=68  Identities=16%  Similarity=0.256  Sum_probs=51.6

Q ss_pred             EEEEEeCCChhh-----------hhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           42 KFDIWDTAGQER-----------YHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        42 ~~~i~D~~G~~~-----------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      .+.||||||...           +...+..++..+|++++|+|+++.........|+..+..   .+.|+++|+||+|+.
T Consensus       155 ~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~---~~~pvilVlNK~Dl~  231 (550)
T 2qpt_A          155 SISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRG---HEDKIRVVLNKADMV  231 (550)
T ss_dssp             HCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTT---CGGGEEEEEECGGGS
T ss_pred             CEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHh---cCCCEEEEEECCCcc
Confidence            588999999764           445566778899999999999875555555666655532   357899999999986


Q ss_pred             cc
Q 030225          111 EK  112 (181)
Q Consensus       111 ~~  112 (181)
                      ..
T Consensus       232 ~~  233 (550)
T 2qpt_A          232 ET  233 (550)
T ss_dssp             CH
T ss_pred             CH
Confidence            53

>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=99.48  E-value=6.9e-14  Score=104.88  Aligned_cols=51  Identities=22%  Similarity=0.146  Sum_probs=35.9

Q ss_pred             CceEEEEEeCCCCc--cc-ccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHH
Q 030225           97 NLIMFLVANKVDLE--EK-RKVKNEEGELYAQENGLSFLETSAKSAHNVNELFY  147 (181)
Q Consensus        97 ~~p~ivi~nK~D~~--~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~  147 (181)
                      .+|+++++||.|..  +. ..........+++..+.+++++||+.+.++.++.+
T Consensus       201 ~KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~g~~vv~iSAk~E~el~eL~~  254 (368)
T 2dby_A          201 AKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVVVVSARLEAELAELSG  254 (368)
T ss_dssp             GSCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHHTCEEEEECHHHHHHHHTSCH
T ss_pred             cCCeEEeccccHHhhcccchhhHHHHHHHHHHHcCCeEEEeechhHHHHHHhch
Confidence            47999999999842  21 12334566778888899999999988655554443

>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=99.48  E-value=1.7e-14  Score=107.64  Aligned_cols=104  Identities=18%  Similarity=0.095  Sum_probs=65.2

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCH--
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKN--  117 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~--  117 (181)
                      .+.+.||||||......   .....+|++++|+|+++.+.+..+..   ..     .+.|.++++||+|+.+......  
T Consensus       148 ~~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~~~~l~~---~~-----~~~p~ivv~NK~Dl~~~~~~~~~~  216 (341)
T 2p67_A          148 GYDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGIKK---GL-----MEVADLIVINKDDGDNHTNVAIAR  216 (341)
T ss_dssp             TCSEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCCCH---HH-----HHHCSEEEECCCCTTCHHHHHHHH
T ss_pred             CCCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHHHHHHHH---hh-----hcccCEEEEECCCCCChHHHHHHH
Confidence            35789999999654332   24688999999999976543221111   00     1357899999999854322110  


Q ss_pred             HHHHHHHHHc-------CCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225          118 EEGELYAQEN-------GLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       118 ~~~~~~~~~~-------~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      .+........       ..+++++||++|+|+++++++|.+.+.
T Consensus       217 ~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          217 HMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            1111111121       357899999999999999999998765

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.47  E-value=7.7e-15  Score=117.47  Aligned_cols=106  Identities=16%  Similarity=0.158  Sum_probs=73.7

Q ss_pred             CCCchhHHHHHHhhCCCCCc------c----cc------ceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFDF------Q----ES------TIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~------~----~~------t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      .++|||||..+|+.......      .    ..      --|+++.+....+.+..++++|+|||||.+|.......++-
T Consensus        11 vD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGH~DF~~Ev~raL~~   90 (638)
T 3j25_A           11 VDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFLAEVYRSLSV   90 (638)
T ss_dssp             STTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSSCBCCCEECCCSSSTHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECCEEEEEEECCCcHHHHHHHHHHHHH
Confidence            36899999999974211100      0    00      01344444455566667789999999999999999999999


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      +|++|+|+|+..+-.... ...+......   +.|.++++||+|..
T Consensus        91 ~DgavlVVDa~~GV~~qT-~~v~~~a~~~---~lp~i~~INKmDr~  132 (638)
T 3j25_A           91 LDGAILLISAKDGVQAQT-RILFHALRKM---GIPTIFFINKIDQN  132 (638)
T ss_dssp             CSEEECCEESSCTTCSHH-HHHHHHHHHH---TCSCEECCEECCSS
T ss_pred             hCEEEEEEeCCCCCcHHH-HHHHHHHHHc---CCCeEEEEeccccc
Confidence            999999999987533222 3334444444   56888999999974

>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=99.47  E-value=2.3e-14  Score=102.77  Aligned_cols=106  Identities=6%  Similarity=-0.085  Sum_probs=73.9

Q ss_pred             CCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHH----HHHHHh-CCCCceEEEEEeC-CCCcccccCCHHHHH
Q 030225           48 TAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWV----QELQRQ-GNPNLIMFLVANK-VDLEEKRKVKNEEGE  121 (181)
Q Consensus        48 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~----~~~~~~-~~~~~p~ivi~nK-~D~~~~~~~~~~~~~  121 (181)
                      .+|+...+.+|+.|+.++|++|||+|++|.+.++ ....+    ..+.+. ...+.|++|++|| .|+.+.  ....+..
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRle-ak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~A--ms~~EI~  270 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR--MPCFYLA  270 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCC-HHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCB--CCHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHH-HHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCC--CCHHHHH
Confidence            4688899999999999999999999999987644 33222    222222 1367899999997 577432  3333333


Q ss_pred             HHHH----HcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          122 LYAQ----ENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       122 ~~~~----~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +...    .+.+.+..|||.+|+|+.+.++||.+.+..+
T Consensus       271 e~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~~k  309 (312)
T 3l2o_B          271 HELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESK  309 (312)
T ss_dssp             HHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSCC-
T ss_pred             HHcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHHhh
Confidence            2211    2456799999999999999999999877544

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.40  E-value=5.6e-12  Score=94.60  Aligned_cols=144  Identities=12%  Similarity=0.052  Sum_probs=86.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhh----hccc---hhhccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY----HSLA---PMYYRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----~~~~---~~~~~~~d~~i~v~d   73 (181)
                      ||||||||+|+|.+........|..+.+...-.+.+++.  ++.++|+||-...    ..+.   ...++++|++++|+|
T Consensus        81 PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~~--~i~l~D~pGl~~~a~~~~~~g~~~l~~i~~ad~il~vvD  158 (376)
T 4a9a_A           81 PSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKGA--KIQMLDLPGIIDGAKDGRGRGKQVIAVARTCNLLFIILD  158 (376)
T ss_dssp             CCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETTE--EEEEEECGGGCCC-----CHHHHHHHHHHHCSEEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCCc--EEEEEeCCCccCCchhhhHHHHHHHHHHHhcCccccccc
Confidence            899999999999987654433344444444445555554  6789999995321    1111   234678999999999


Q ss_pred             CCChhH-HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc--------cccCCHHHHHHHHHHcCCeEEEEecCCCCCHHH
Q 030225           74 ITSMDS-FERAKKWVQELQRQGNPNLIMFLVANKVDLEE--------KRKVKNEEGELYAQENGLSFLETSAKSAHNVNE  144 (181)
Q Consensus        74 ~~~~~s-~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~--------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  144 (181)
                      ++++.. .+.+...+..+.. ....+|.++++||.|...        ......++...+...+.+..-.+-...+...++
T Consensus       159 ~~~p~~~~~~i~~EL~~~~~-~l~~k~~~i~~nK~d~~gi~i~~~~~~~~l~~eeik~il~~~~lt~kpv~~~~nv~edd  237 (376)
T 4a9a_A          159 VNKPLHHKQIIEKELEGVGI-RLNKTPPDILIKKKEKGGISITNTVPLTHLGNDEIRAVMSEYRINSAEIAFRCDATVDD  237 (376)
T ss_dssp             TTSHHHHHHHHHHHHHHTTE-EETCCCCCEEEEECSSSCEEEEESSCCSSCCHHHHHHHHHHTTCCSEEEEECSCCCHHH
T ss_pred             cCccHHHHHHHHHHHHHhhH-hhccCChhhhhhHhhhhhhhhhcchhhhhccHHHHHHHHHHhcccCCCeeecccCCHHH
Confidence            998743 2223333322211 124678888999999742        233455666666666555333333334444555


Q ss_pred             HHH
Q 030225          145 LFY  147 (181)
Q Consensus       145 ~~~  147 (181)
                      +.+
T Consensus       238 l~d  240 (376)
T 4a9a_A          238 LID  240 (376)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            444

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.36  E-value=1.3e-11  Score=100.17  Aligned_cols=67  Identities=19%  Similarity=0.150  Sum_probs=53.2

Q ss_pred             eEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCC
Q 030225           39 VTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL  109 (181)
Q Consensus        39 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~  109 (181)
                      ..+.++++|||||.+|.......++-+|++|+|+|+..+--... +..+......   +.|.++++||+|.
T Consensus        83 ~~~~iNlIDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT-~~v~~~a~~~---~lp~i~~iNKiDr  149 (709)
T 4fn5_A           83 DNYRVNVIDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQS-ETVWRQANKY---GVPRIVYVNKMDR  149 (709)
T ss_dssp             CCEEEEEECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHH-HHHHHHHHHH---TCCEEEEEECSSS
T ss_pred             CCEEEEEEeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhH-HHHHHHHHHc---CCCeEEEEccccc
Confidence            36899999999999999999999999999999999986533333 2333444343   5789999999997

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.36  E-value=5.5e-13  Score=99.21  Aligned_cols=104  Identities=13%  Similarity=0.103  Sum_probs=63.1

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHH
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEE  119 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~  119 (181)
                      .+.+.|+||+|.....   ......+|++++++|....+....+...   +.     ..+.++++||+|+..........
T Consensus       147 ~~~~iliDT~Gi~~~~---~~v~~~~d~vl~v~d~~~~~~~~~i~~~---i~-----~~~~ivvlNK~Dl~~~~~~s~~~  215 (337)
T 2qm8_A          147 GFDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKKG---IF-----ELADMIAVNKADDGDGERRASAA  215 (337)
T ss_dssp             TCCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCTT---HH-----HHCSEEEEECCSTTCCHHHHHHH
T ss_pred             CCCEEEEECCCCCcch---hhHHhhCCEEEEEEcCCCcccHHHHHHH---Hh-----ccccEEEEEchhccCchhHHHHH
Confidence            3578899999964321   2345789999999998754332111111   11     23557777999974322211112


Q ss_pred             HHHHHHH----------cCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225          120 GELYAQE----------NGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       120 ~~~~~~~----------~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      ...+...          ++.+++.+||+++.|++++++.|.+...
T Consensus       216 ~~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          216 ASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            2222221          1457899999999999999999988765

>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=99.30  E-value=4.3e-12  Score=102.55  Aligned_cols=108  Identities=15%  Similarity=0.150  Sum_probs=67.4

Q ss_pred             EEEEEeCCChhh-------------hhccchhhc-cCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCC
Q 030225           42 KFDIWDTAGQER-------------YHSLAPMYY-RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKV  107 (181)
Q Consensus        42 ~~~i~D~~G~~~-------------~~~~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~  107 (181)
                      .+.|+||||-..             ...+...|+ ..+|++++|+|+++...-.+...++..+   ...+.|+++|+||+
T Consensus       151 qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~ll~~L---~~~g~pvIlVlNKi  227 (772)
T 3zvr_A          151 NLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEV---DPQGQRTIGVITKL  227 (772)
T ss_dssp             SEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHHHHHH---CTTCSSEEEEEECT
T ss_pred             ceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHHHHHH---HhcCCCEEEEEeCc
Confidence            478999999432             222333344 6889999999998643222222233333   23468999999999


Q ss_pred             CCcccccCCHHHHHH-H-HHHcC-CeEEEEecCCCCCHHHHHHHHHHH
Q 030225          108 DLEEKRKVKNEEGEL-Y-AQENG-LSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus       108 D~~~~~~~~~~~~~~-~-~~~~~-~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      |+.+........... . ....+ .+++.+||++|.|++++++.+.+.
T Consensus       228 Dlv~~~~~~~~il~~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          228 DLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             TSSCTTCCSHHHHTTCSSCCSSCEEECCCCCCEESSSSEEHHHHHHHH
T ss_pred             ccCCcchhhHHHHHHHhhhhhccCCceEEecccccccchhHHHHHHHH
Confidence            997544332221110 0 00012 256788999999999999999874

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.18  E-value=1.3e-11  Score=93.09  Aligned_cols=79  Identities=9%  Similarity=-0.054  Sum_probs=41.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCe---------------EEEEEEEeCCChhhhhc-------cc
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEV---------------TIKFDIWDTAGQERYHS-------LA   58 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~~~~-------~~   58 (181)
                      ||||||||+|+|.+........|..+.+.....+.+++.               ...+.+||+||...+..       .+
T Consensus        31 pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~as~~~glg~~~  110 (396)
T 2ohf_A           31 PNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKGAHNGQGLGNAF  110 (396)
T ss_dssp             SSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC-----------CCHH
T ss_pred             CCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcccccchhhHHHHHH
Confidence            799999999999987653333333333333333334332               23589999999865443       34


Q ss_pred             hhhccCCcEEEEEEECCChhH
Q 030225           59 PMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus        59 ~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      ..+++++|++++|+|+++.++
T Consensus       111 l~~ir~aD~Il~VvD~~~~~~  131 (396)
T 2ohf_A          111 LSHISACDGIFHLTRAFEDDD  131 (396)
T ss_dssp             HHHHHTSSSEEEEEEC-----
T ss_pred             HHHHHhcCeEEEEEecCCCcc
Confidence            566889999999999986433

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.16  E-value=1.1e-10  Score=87.88  Aligned_cols=97  Identities=26%  Similarity=0.299  Sum_probs=73.0

Q ss_pred             ChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHH----HHH
Q 030225           50 GQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL----YAQ  125 (181)
Q Consensus        50 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~----~~~  125 (181)
                      ..+.|+.++..+.+.++++++|+|++|+.     ..|...+.+.. .++|+++|+||+|+... ....+....    +++
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~-~~~p~ilV~NK~DL~~~-~~~~~~~~~~l~~~~~  127 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFV-GNNKVLLVGNKADLIPK-SVKHDKVKHWMRYSAK  127 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHS-SSSCEEEEEECGGGSCT-TSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHh-CCCcEEEEEEChhcCCc-ccCHHHHHHHHHHHHH
Confidence            35678888899999999999999999864     34555555543 47899999999999653 223333333    355


Q ss_pred             HcCC---eEEEEecCCCCCHHHHHHHHHHHH
Q 030225          126 ENGL---SFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       126 ~~~~---~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      ..++   .++.+||++|.|++++++.|.+..
T Consensus       128 ~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          128 QLGLKPEDVFLISAAKGQGIAELADAIEYYR  158 (368)
T ss_dssp             HTTCCCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HcCCCcccEEEEeCCCCcCHHHHHhhhhhhc
Confidence            6677   799999999999999999997654

>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=99.15  E-value=9.3e-10  Score=83.10  Aligned_cols=76  Identities=12%  Similarity=0.026  Sum_probs=48.0

Q ss_pred             CCCchhHHHHHHhhCCC-CCccccceeeeEEEEEEEECCe---------------EEEEEEEeCCChhhhh-------cc
Q 030225            1 MGTGKTSLVLRFVKGQF-FDFQESTIGAAFFTQVLSLNEV---------------TIKFDIWDTAGQERYH-------SL   57 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~-~~~~~~t~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~~~-------~~   57 (181)
                      ||||||||+|+|.+... .....|..+.+...-.+.+.+.               ...+.+||+||.....       ..
T Consensus        29 pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~~~~s~~e~L~~~  108 (392)
T 1ni3_A           29 PNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGASTGVGLGNA  108 (392)
T ss_dssp             SSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCCCSSSSSCHH
T ss_pred             CCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEeccccccCCcHHHHHHHH
Confidence            79999999999999665 3323333332222233344431               1357899999954211       12


Q ss_pred             chhhccCCcEEEEEEECCC
Q 030225           58 APMYYRGAAAAVVVYDITS   76 (181)
Q Consensus        58 ~~~~~~~~d~~i~v~d~~~   76 (181)
                      ....++.+|++++|+|+.+
T Consensus       109 fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A          109 FLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             HHHHHTTCSEEEEEEECCC
T ss_pred             HHHHHHHHHHHHHHHhccc
Confidence            3345688999999999874

>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=99.05  E-value=3.5e-10  Score=82.11  Aligned_cols=101  Identities=13%  Similarity=0.056  Sum_probs=69.9

Q ss_pred             EEeCCChh-hhhccchhhccCCcEEEEEEECCChhHHH--HHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHH
Q 030225           45 IWDTAGQE-RYHSLAPMYYRGAAAAVVVYDITSMDSFE--RAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE  121 (181)
Q Consensus        45 i~D~~G~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~  121 (181)
                      |-..|||. .........+.++|+++.|+|+.++.+..  .+..|+        .++|.++++||+|+.+...  .+...
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l--------~~kp~ilVlNK~DL~~~~~--~~~~~   72 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL--------KNKPRIMLLNKADKADAAV--TQQWK   72 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC--------SSSCEEEEEECGGGSCHHH--HHHHH
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH--------CCCCEEEEEECcccCCHHH--HHHHH
Confidence            44588986 44445566789999999999999987653  333332        4789999999999965211  12223


Q ss_pred             HHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       122 ~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      .+.++.+++++.+||+++.|++++++.+.+.+..
T Consensus        73 ~~~~~~g~~~i~iSA~~~~gi~~L~~~i~~~l~~  106 (282)
T 1puj_A           73 EHFENQGIRSLSINSVNGQGLNQIVPASKEILQE  106 (282)
T ss_dssp             HHHHTTTCCEEECCTTTCTTGGGHHHHHHHHHHH
T ss_pred             HHHHhcCCcEEEEECCCcccHHHHHHHHHHHHHH
Confidence            4444557899999999999999999998887654

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.01  E-value=4.4e-10  Score=84.58  Aligned_cols=97  Identities=23%  Similarity=0.250  Sum_probs=71.3

Q ss_pred             ChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHH----HHH
Q 030225           50 GQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGEL----YAQ  125 (181)
Q Consensus        50 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~----~~~  125 (181)
                      .++.|+.....++..++++++|+|++|+.+     .|...+.+.. .++|+++|+||+|+... ....+....    +++
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l-~~~piilV~NK~DLl~~-~~~~~~~~~~l~~~~~  129 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFA-ADNPILLVGNKADLLPR-SVKYPKLLRWMRRMAE  129 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHC-TTSCEEEEEECGGGSCT-TCCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHh-CCCCEEEEEEChhcCCC-ccCHHHHHHHHHHHHH
Confidence            467888888888899999999999999764     3434444432 47899999999998653 222333333    355


Q ss_pred             HcCC---eEEEEecCCCCCHHHHHHHHHHHH
Q 030225          126 ENGL---SFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       126 ~~~~---~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      ..++   .++.+||++|.|++++++.+.+..
T Consensus       130 ~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~  160 (369)
T 3ec1_A          130 ELGLCPVDVCLVSAAKGIGMAKVMEAINRYR  160 (369)
T ss_dssp             TTTCCCSEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             HcCCCcccEEEEECCCCCCHHHHHHHHHhhc
Confidence            5676   689999999999999999997654

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.74  E-value=7e-10  Score=83.47  Aligned_cols=133  Identities=15%  Similarity=0.147  Sum_probs=75.6

Q ss_pred             CCCchhHHHHHHhhC-----CCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhcc--------chhhc--cCC
Q 030225            1 MGTGKTSLVLRFVKG-----QFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSL--------APMYY--RGA   65 (181)
Q Consensus         1 ~~~GKttLl~~l~~~-----~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~--~~~   65 (181)
                      ||+|||||+|+|++.     ... ...+..|++.....+.++..   +.++||||-.....+        ...++  +..
T Consensus       171 ~nvGKStliN~L~~~~~~~~~~~-~~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l~~~~~~~~i  246 (369)
T 3ec1_A          171 TNVGKSTFINRIIEEATGKGNVI-TTSYFPGTTLDMIEIPLESG---ATLYDTPGIINHHQMAHFVDARDLKIITPKREI  246 (369)
T ss_dssp             TTSSHHHHHHHHHHHHHHTTCCC-EEEECTTSSCEEEEEECSTT---CEEEECCSCCCCSSGGGGSCTTTHHHHSCSSCC
T ss_pred             CCCchHHHHHHHHhhccCCccce-eecCCCCeEEeeEEEEeCCC---eEEEeCCCcCcHHHHHHHHhHHHHHHHhccccc
Confidence            799999999999975     211 11223344444555555543   679999995322211        11222  678


Q ss_pred             cEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCH
Q 030225           66 AAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNV  142 (181)
Q Consensus        66 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  142 (181)
                      +.++++++....-.+..+.+    +......+.|+++++||.|....... ......+.+..+..+...++.+..++
T Consensus       247 ~~~~~~l~~~~~~~~g~l~~----l~~l~~~~~~~~~v~~k~d~~~~~~~-~~~~~~~~~~~g~~l~p~~~~~~~~~  318 (369)
T 3ec1_A          247 HPRVYQLNEGQTLFFGGLAR----LDYIKGGRRSFVCYMANELTVHRTKL-EKADSLYANQLGELLSPPSKRYAAEF  318 (369)
T ss_dssp             CCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEEG-GGHHHHHHHHBTTTBCSSCGGGTTTC
T ss_pred             CceEEEEcCCceEEECCEEE----EEEccCCCceEEEEecCCcccccccH-HHHHHHHHHhcCCccCCCCchhhhhc
Confidence            99999999842210000000    11112356899999999998654433 23344566666766655555554443

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.72  E-value=5.1e-10  Score=84.17  Aligned_cols=127  Identities=14%  Similarity=0.140  Sum_probs=69.1

Q ss_pred             CCCchhHHHHHHhhCCC-----CCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhcc----c----hhh--ccCC
Q 030225            1 MGTGKTSLVLRFVKGQF-----FDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSL----A----PMY--YRGA   65 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~-----~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~----~----~~~--~~~~   65 (181)
                      ||+|||||+|+|++...     .....+..|++.....+.+...   +.++||||-.....+    .    ..+  .+..
T Consensus       169 ~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l~~~~~~~~i  245 (368)
T 3h2y_A          169 TNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPLDEE---SSLYDTPGIINHHQMAHYVGKQSLKLITPTKEI  245 (368)
T ss_dssp             TTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEESSSS---CEEEECCCBCCTTSGGGGSCHHHHHHHSCSSCC
T ss_pred             CCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEEecCC---eEEEeCCCcCcHHHHHHHhhHHHHHHhcccccc
Confidence            79999999999997531     1112334455555555555544   679999996332211    1    111  3677


Q ss_pred             cEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEe
Q 030225           66 AAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETS  135 (181)
Q Consensus        66 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S  135 (181)
                      +..+++++....-.+..+..    +......+.|+++++||.|....... ......+.+..+..+...+
T Consensus       246 ~~~~~~l~~~~~~~~g~l~~----~d~l~~~~~~~~~v~nk~d~~~~~~~-~~~~~~~~~~~g~~l~p~~  310 (368)
T 3h2y_A          246 KPMVFQLNEEQTLFFSGLAR----FDYVSGGRRAFTCHFSNRLTIHRTKL-EKADELYKNHAGDLLSPPT  310 (368)
T ss_dssp             CCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEEH-HHHHHHHHHHBTTTBCSSC
T ss_pred             CceEEEEcCCCEEEEcceEE----EEEecCCCceEEEEecCccccccccH-HHHHHHHHHHhCCccCCCc
Confidence            88899988742110000000    11112356899999999998653332 2333445555565444333

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.69  E-value=2.8e-09  Score=82.91  Aligned_cols=102  Identities=14%  Similarity=0.080  Sum_probs=60.8

Q ss_pred             EEEEEEEeCCChhhhh-ccch---hh--ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceE-EEEEeCCCCccc
Q 030225           40 TIKFDIWDTAGQERYH-SLAP---MY--YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIM-FLVANKVDLEEK  112 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~-~~~~---~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~-ivi~nK~D~~~~  112 (181)
                      .+.+.|+||||..... .++.   ..  +..+|.+++|+|+......   ......+..    ..|+ .+|+||.|....
T Consensus       183 ~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~---~~~a~~~~~----~~~i~gvVlNK~D~~~~  255 (504)
T 2j37_W          183 NFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQAC---EAQAKAFKD----KVDVASVIVTKLDGHAK  255 (504)
T ss_dssp             TCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTH---HHHHHHHHH----HHCCCCEEEECTTSCCC
T ss_pred             CCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccH---HHHHHHHHh----hcCceEEEEeCCccccc
Confidence            3578899999964321 1111   11  2278999999999865331   112222222    1464 888999997532


Q ss_pred             ccCCHHHHHHHHHHcCCeE------------------EEEecCCCCC-HHHHHHHHHHH
Q 030225          113 RKVKNEEGELYAQENGLSF------------------LETSAKSAHN-VNELFYEIAKR  152 (181)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~------------------~~~Sa~~~~g-i~~~~~~l~~~  152 (181)
                      ..    .........+.|+                  +.+|+..|.| +.++++++.+.
T Consensus       256 ~g----~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          256 GG----GALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             CT----HHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             hH----HHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            11    1222333445543                  3468889999 99999998765

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.64  E-value=1.2e-08  Score=73.20  Aligned_cols=93  Identities=15%  Similarity=0.066  Sum_probs=61.0

Q ss_pred             CCChhhh-hccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHH
Q 030225           48 TAGQERY-HSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE  126 (181)
Q Consensus        48 ~~G~~~~-~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~  126 (181)
                      .|||... .......+.++|+++.|+|+.++.+.....  +. +    . ++|.++++||+|+.+...  .+....+.+.
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~--l~-l----l-~k~~iivlNK~DL~~~~~--~~~~~~~~~~   73 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYG--VD-F----S-RKETIILLNKVDIADEKT--TKKWVEFFKK   73 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTT--SC-C----T-TSEEEEEEECGGGSCHHH--HHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChH--HH-h----c-CCCcEEEEECccCCCHHH--HHHHHHHHHH
Confidence            5787632 234456789999999999999886653210  11 1    1 689999999999965211  1222344555


Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHH
Q 030225          127 NGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus       127 ~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      .+.++ .+||+++.|++++++.+..
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            67888 9999999999999887754

>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=98.48  E-value=1.3e-06  Score=66.42  Aligned_cols=150  Identities=15%  Similarity=0.135  Sum_probs=75.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccce-ee--eEEEEEEEECCeEEEEEEEeCCChhhhhcc-----chhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTI-GA--AFFTQVLSLNEVTIKFDIWDTAGQERYHSL-----APMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~-~~--~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-----~~~~~~~~d~~i~v~   72 (181)
                      +|||||||+|.+.+...+..-.-++ +.  +......... ..-.+.+||++|-......     ...-+.+.+..++ +
T Consensus        78 nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q~~-~~~~ltv~D~~g~~~~~~~~~~~L~~~~L~~~~~~~~-l  155 (413)
T 1tq4_A           78 TGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHP-NIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFII-I  155 (413)
T ss_dssp             TTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECS-SCTTEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEEE-E
T ss_pred             CCCcHHHHHHHHhCCCCccCceEEECCeecceeEEecccc-ccCCeeehHhhcccchHHHHHHHHHHcCCCccCCeEE-e
Confidence            6999999999999832211100000 10  0111111111 1114789999985321111     1112334455555 7


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc-------ccccCCHHHH----HHHH----HHcC---CeEEEE
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE-------EKRKVKNEEG----ELYA----QENG---LSFLET  134 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~-------~~~~~~~~~~----~~~~----~~~~---~~~~~~  134 (181)
                      |...+..  .-..+...+..   .+.|++++.||.|+.       .-+.....+.    ..+.    .+.+   ..++.+
T Consensus       156 S~G~~~k--qrv~la~aL~~---~~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~l~~~g~~~~~iili  230 (413)
T 1tq4_A          156 SATRFKK--NDIDIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLL  230 (413)
T ss_dssp             ESSCCCH--HHHHHHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEEC
T ss_pred             CCCCccH--HHHHHHHHHHh---cCCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHHHHhcCCCCCcEEEE
Confidence            7652111  11112222222   357999999999963       1112222322    2222    1222   357889


Q ss_pred             ec--CCCCCHHHHHHHHHHHHHhhC
Q 030225          135 SA--KSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       135 Sa--~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      |+  .++.|++++.+.+.+.+.+.+
T Consensus       231 Ssh~l~~~~~e~L~d~I~~~Lpeg~  255 (413)
T 1tq4_A          231 SNKNVCHYDFPVLMDKLISDLPIYK  255 (413)
T ss_dssp             CTTCTTSTTHHHHHHHHHHHSCGGG
T ss_pred             ecCcCCccCHHHHHHHHHHhCccch
Confidence            99  556679999999988775543

>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=98.42  E-value=3.2e-07  Score=69.86  Aligned_cols=132  Identities=14%  Similarity=0.134  Sum_probs=61.3

Q ss_pred             CCCchhHHHHHHhhCCCCCcccc--ceeeeEEEEEEEEC--CeEEEEEEEeCCChhhh-------h-----------ccc
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQES--TIGAAFFTQVLSLN--EVTIKFDIWDTAGQERY-------H-----------SLA   58 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~--t~~~~~~~~~~~~~--~~~~~~~i~D~~G~~~~-------~-----------~~~   58 (181)
                      +|+|||||++.|.+..+......  ..+.......+...  +....+.++|++|-...       .           ...
T Consensus        51 nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~D~~~~g~~~~~~~~~~~i~~~i~~q~~~~L  130 (427)
T 2qag_B           51 TGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGFGDQINKEDSYKPIVEFIDAQFEAYL  130 (427)
T ss_dssp             TTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEEEEECCCC-CCHHHHSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchhhhhhhhhccccchhhhHHHHHHHHHHHHHH
Confidence            69999999999998653221111  11222222222222  22346889999874211       0           000


Q ss_pred             hh---------hccCC--c-EEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC--CHHHHHHHH
Q 030225           59 PM---------YYRGA--A-AAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV--KNEEGELYA  124 (181)
Q Consensus        59 ~~---------~~~~~--d-~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~--~~~~~~~~~  124 (181)
                      ..         .+.++  | ++.|+.|...+-+..+ ...   +.... .++|++++.||+|.....+.  ........+
T Consensus       131 ~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~D-iei---lk~L~-~~~~vI~Vi~KtD~Lt~~E~~~l~~~I~~~L  205 (427)
T 2qag_B          131 QEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLD-LVT---MKKLD-SKVNIIPIIAKADAISKSELTKFKIKITSEL  205 (427)
T ss_dssp             HHC--CCCCCCCSCC--CCEEEEEECCCC---CHHH-HHH---HHHTC-SCSEEEEEESCGGGSCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHH-HHH---HHHHh-hCCCEEEEEcchhccchHHHHHHHHHHHHHH
Confidence            11         11222  2 3555666553322221 122   22222 57899999999997543221  111222223


Q ss_pred             HHcCCeEEEEecC
Q 030225          125 QENGLSFLETSAK  137 (181)
Q Consensus       125 ~~~~~~~~~~Sa~  137 (181)
                      ...|++++.+|.-
T Consensus       206 ~~~gi~I~~is~~  218 (427)
T 2qag_B          206 VSNGVQIYQFPTD  218 (427)
T ss_dssp             BTTBCCCCCCC--
T ss_pred             HHcCCcEEecCCC
Confidence            3457788777753

>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=98.40  E-value=9.6e-08  Score=69.91  Aligned_cols=90  Identities=13%  Similarity=0.129  Sum_probs=60.7

Q ss_pred             ccchhhccCCcEEEEEEECCChhH-HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC--CHHHHHHHHHHcCCeEE
Q 030225           56 SLAPMYYRGAAAAVVVYDITSMDS-FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV--KNEEGELYAQENGLSFL  132 (181)
Q Consensus        56 ~~~~~~~~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~  132 (181)
                      .+.+..+.++|.+++|+|+.+|.. ...+.+++.....   .++|.++++||+|+.+..+.  ..+....+....|.+++
T Consensus        78 ~l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~~---~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~  154 (307)
T 1t9h_A           78 ELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVY  154 (307)
T ss_dssp             EETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEE
T ss_pred             hhhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECCccCchhhhHHHHHHHHHHHHhCCCeEE
Confidence            344557899999999999987654 3344554433322   46788999999999653220  01233344445688999


Q ss_pred             EEecCCCCCHHHHHHH
Q 030225          133 ETSAKSAHNVNELFYE  148 (181)
Q Consensus       133 ~~Sa~~~~gi~~~~~~  148 (181)
                      .+||.++.|++++++.
T Consensus       155 ~~sa~~~~g~~~L~~~  170 (307)
T 1t9h_A          155 LTSSKDQDSLADIIPH  170 (307)
T ss_dssp             ECCHHHHTTCTTTGGG
T ss_pred             EEecCCCCCHHHHHhh
Confidence            9999999888766554

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.29  E-value=8e-07  Score=64.00  Aligned_cols=66  Identities=12%  Similarity=0.074  Sum_probs=35.8

Q ss_pred             cCCcEEEEEEECCC-hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC--CHHHHHHHHHHcCCeEEE
Q 030225           63 RGAAAAVVVYDITS-MDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV--KNEEGELYAQENGLSFLE  133 (181)
Q Consensus        63 ~~~d~~i~v~d~~~-~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~~  133 (181)
                      ..+++.++++|... +-.-.. ...+..+..   . .+++++++|+|.....+.  ...........+++.++.
T Consensus       110 aRal~~lllldep~~gL~~lD-~~~l~~L~~---~-~~vI~Vi~K~D~lt~~e~~~~k~~i~~~l~~~~i~i~~  178 (270)
T 3sop_A          110 TRVHCCLYFISPTGHSLRPLD-LEFMKHLSK---V-VNIIPVIAKADTMTLEEKSEFKQRVRKELEVNGIEFYP  178 (270)
T ss_dssp             CSCCEEEEEECCCSSSCCHHH-HHHHHHHHT---T-SEEEEEETTGGGSCHHHHHHHHHHHHHHHHHTTCCCSS
T ss_pred             heeeeeeEEEecCCCcCCHHH-HHHHHHHHh---c-CcEEEEEeccccCCHHHHHHHHHHHHHHHHHcCccccC
Confidence            34688889998552 211111 222333322   2 799999999997543221  122333445566776654

>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=98.17  E-value=7.8e-06  Score=61.02  Aligned_cols=85  Identities=15%  Similarity=0.164  Sum_probs=55.7

Q ss_pred             hccCCcEEEEEEECCChhH-HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCC-HHHHHHHHHHcCCeEEEEecCC
Q 030225           61 YYRGAAAAVVVYDITSMDS-FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK-NEEGELYAQENGLSFLETSAKS  138 (181)
Q Consensus        61 ~~~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~-~~~~~~~~~~~~~~~~~~Sa~~  138 (181)
                      ...++|.+++|.+. +|.. ...+.+++......   ++|.++++||+|+.+..... .++........|++++.+||.+
T Consensus       127 i~anvD~v~iv~a~-~P~~~~~~i~r~L~~a~~~---~~~~iivlNK~DL~~~~~~~~~~~~~~~y~~~G~~v~~~Sa~~  202 (358)
T 2rcn_A          127 IAANIDQIVIVSAI-LPELSLNIIDRYLVGCETL---QVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRVLMVSSHT  202 (358)
T ss_dssp             EEECCCEEEEEEES-TTTCCHHHHHHHHHHHHHH---TCEEEEEEECGGGCCHHHHHHHHHHHHHHHTTTCCEEECBTTT
T ss_pred             HHhcCCEEEEEEeC-CCCCCHHHHHHHHHHHHhc---CCCEEEEEECccCCCchhHHHHHHHHHHHHhCCCcEEEEecCC
Confidence            46889999988665 4543 34455555444333   56789999999996532200 1112233345688999999999


Q ss_pred             CCCHHHHHHHH
Q 030225          139 AHNVNELFYEI  149 (181)
Q Consensus       139 ~~gi~~~~~~l  149 (181)
                      +.|++++...+
T Consensus       203 ~~gl~~L~~~~  213 (358)
T 2rcn_A          203 QDGLKPLEEAL  213 (358)
T ss_dssp             TBTHHHHHHHH
T ss_pred             CcCHHHHHHhc
Confidence            99999887643

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.14  E-value=5.5e-07  Score=64.58  Aligned_cols=49  Identities=22%  Similarity=0.192  Sum_probs=28.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER   53 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   53 (181)
                      ||+|||||+|+|.+..... ..++.|++.....+..+.   .+.+|||||...
T Consensus       108 ~~vGKSslin~l~~~~~~~-~~~~~g~T~~~~~~~~~~---~~~l~DtpG~~~  156 (262)
T 3cnl_A          108 PNTGKSTIINKLKGKRASS-VGAQPGITKGIQWFSLEN---GVKILDTPGILY  156 (262)
T ss_dssp             TTSSHHHHHHHHHTTCC-----------CCSCEEECTT---SCEEESSCEECC
T ss_pred             CCCCHHHHHHHHhcccccc-cCCCCCCccceEEEEeCC---CEEEEECCCccc
Confidence            7999999999999876533 234455544333333332   467999999653

>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=98.13  E-value=1.3e-06  Score=63.22  Aligned_cols=48  Identities=21%  Similarity=0.313  Sum_probs=26.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE   52 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~   52 (181)
                      ||||||||+|+|.+..... ..+..|++.....+....   .+.+|||||-.
T Consensus       129 ~nvGKSsliN~l~~~~~~~-~~~~~g~T~~~~~~~~~~---~~~l~DtpG~~  176 (282)
T 1puj_A          129 PNVGKSTLINRLAKKNIAK-TGDRPGITTSQQWVKVGK---ELELLDTPGIL  176 (282)
T ss_dssp             TTSSHHHHHHHHHTSCCC-------------CCEEETT---TEEEEECCCCC
T ss_pred             CCCchHHHHHHHhcCceee-cCCCCCeeeeeEEEEeCC---CEEEEECcCcC
Confidence            7999999999999876432 223344443333333332   46799999964

>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=98.06  E-value=1.8e-06  Score=66.10  Aligned_cols=90  Identities=14%  Similarity=0.090  Sum_probs=52.0

Q ss_pred             EEEEEEeCCChhhhhc-----cc-hhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc
Q 030225           41 IKFDIWDTAGQERYHS-----LA-PMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK  114 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~-----~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~  114 (181)
                      +.+.|+||+|......     +. -.....+|.+++|+|++......   .....+...   -.+..+|+||.|....  
T Consensus       183 ~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~---~~a~~f~~~---~~i~gVIlTKlD~~~~--  254 (443)
T 3dm5_A          183 VDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAY---NQALAFKEA---TPIGSIIVTKLDGSAK--  254 (443)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHH---HHHHHHHHS---CTTEEEEEECCSSCSS--
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHH---HHHHHHHhh---CCCeEEEEECCCCccc--
Confidence            5788999999432111     10 01123579999999988643322   222333322   2356788999997431  


Q ss_pred             CCHHHHHHHHHHcCCeEEEEecCCCCCH
Q 030225          115 VKNEEGELYAQENGLSFLETSAKSAHNV  142 (181)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  142 (181)
                        .-.+.......++|+.+++.  |+++
T Consensus       255 --gG~~ls~~~~~g~PI~fig~--Ge~v  278 (443)
T 3dm5_A          255 --GGGALSAVAATGAPIKFIGT--GEKI  278 (443)
T ss_dssp             --HHHHHHHHHTTCCCEEEEEC--SSST
T ss_pred             --ccHHHHHHHHHCCCEEEEEc--CCCh
Confidence              12334455567888887775  5543

>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=97.94  E-value=4.5e-06  Score=63.98  Aligned_cols=84  Identities=17%  Similarity=0.070  Sum_probs=47.2

Q ss_pred             EEEEEEEeCCChhhhhc-cc---h--hhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCc-e-EEEEEeCCCCcc
Q 030225           40 TIKFDIWDTAGQERYHS-LA---P--MYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNL-I-MFLVANKVDLEE  111 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~-~~---~--~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~-p-~ivi~nK~D~~~  111 (181)
                      .+.+.|+||||...... +.   .  ..+..+|.+++|+|+.....   .......+.    ... | ..+|+||.|...
T Consensus       180 ~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~---~~~~~~~~~----~~~~~i~gvVlnK~D~~~  252 (432)
T 2v3c_C          180 KADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQ---AGIQAKAFK----EAVGEIGSIIVTKLDGSA  252 (432)
T ss_dssp             SCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGG---HHHHHHHHH----TTSCSCEEEEEECSSSCS
T ss_pred             CCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHH---HHHHHHHHh----hcccCCeEEEEeCCCCcc
Confidence            35678999999643211 10   1  11236899999999875432   122222221    233 4 888899999742


Q ss_pred             cccCCHHHHHHHHHHcCCeEEEE
Q 030225          112 KRKVKNEEGELYAQENGLSFLET  134 (181)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~  134 (181)
                      .    ...........+.++.++
T Consensus       253 ~----~g~~l~~~~~~~~pi~~i  271 (432)
T 2v3c_C          253 K----GGGALSAVAETKAPIKFI  271 (432)
T ss_dssp             T----THHHHHHHHHSSCCEEEE
T ss_pred             c----hHHHHHHHHHHCCCEEEe
Confidence            1    122334556667776555

>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=97.82  E-value=1.1e-05  Score=61.69  Aligned_cols=91  Identities=13%  Similarity=0.073  Sum_probs=53.4

Q ss_pred             EEEEEEEeCCChhh--hh----ccchh--hccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           40 TIKFDIWDTAGQER--YH----SLAPM--YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        40 ~~~~~i~D~~G~~~--~~----~~~~~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      .+.+.|+||||...  ..    .....  .....+.+++|+|+.......   .....+...   -.+..+|+||.|...
T Consensus       179 ~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~---~~a~~f~~~---~~~~gVIlTKlD~~a  252 (433)
T 3kl4_A          179 KMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAY---DLASRFHQA---SPIGSVIITKMDGTA  252 (433)
T ss_dssp             TCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGH---HHHHHHHHH---CSSEEEEEECGGGCS
T ss_pred             CCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHH---HHHHHHhcc---cCCcEEEEecccccc
Confidence            35678999999533  11    01111  112468999999998643322   222333322   235788999999642


Q ss_pred             cccCCHHHHHHHHHHcCCeEEEEecCCCCCH
Q 030225          112 KRKVKNEEGELYAQENGLSFLETSAKSAHNV  142 (181)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  142 (181)
                          ..-.+.......+.|+.+++.  |+++
T Consensus       253 ----~~G~als~~~~~g~Pi~fig~--Ge~v  277 (433)
T 3kl4_A          253 ----KGGGALSAVVATGATIKFIGT--GEKI  277 (433)
T ss_dssp             ----CHHHHHHHHHHHTCEEEEEEC--CSSS
T ss_pred             ----cchHHHHHHHHHCCCEEEEEC--CCCh
Confidence                223344555667899888875  6554

>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=97.69  E-value=6.5e-05  Score=54.78  Aligned_cols=92  Identities=15%  Similarity=0.133  Sum_probs=54.8

Q ss_pred             EEEEEEEeCCChhh--hhc-cch-----hhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCce-EEEEEeCCCCc
Q 030225           40 TIKFDIWDTAGQER--YHS-LAP-----MYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLE  110 (181)
Q Consensus        40 ~~~~~i~D~~G~~~--~~~-~~~-----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivi~nK~D~~  110 (181)
                      .+.+.++||||...  ... +..     .....+|.+++|+|+....   ........+..    ..| ..+|.||.|..
T Consensus       180 ~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~---~~~~~~~~~~~----~~~i~gvVlnk~D~~  252 (297)
T 1j8m_F          180 KMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQ---KAYDLASKFNQ----ASKIGTIIITKMDGT  252 (297)
T ss_dssp             TCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGG---GHHHHHHHHHH----TCTTEEEEEECGGGC
T ss_pred             CCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchH---HHHHHHHHHHh----hCCCCEEEEeCCCCC
Confidence            35688999999765  211 111     1234689999999987432   12222222322    234 77889999963


Q ss_pred             ccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHH
Q 030225          111 EKRKVKNEEGELYAQENGLSFLETSAKSAHNVNE  144 (181)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  144 (181)
                      .    ............+.|+.+++  .|+++++
T Consensus       253 ~----~~g~~~~~~~~~~~pi~~i~--~Ge~v~d  280 (297)
T 1j8m_F          253 A----KGGGALSAVAATGATIKFIG--TGEKIDE  280 (297)
T ss_dssp             T----THHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             c----chHHHHHHHHHHCcCEEEEe--CCCChhh
Confidence            2    12334556667788988776  5666644

>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=97.63  E-value=3.4e-05  Score=61.22  Aligned_cols=52  Identities=17%  Similarity=0.017  Sum_probs=29.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccce-eeeEEEEEE--EE-CCeEEEEEEEeCCChh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTI-GAAFFTQVL--SL-NEVTIKFDIWDTAGQE   52 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~-~~~~~~~~~--~~-~~~~~~~~i~D~~G~~   52 (181)
                      ||||||||+|+|.+.........++ +.+...+.+  .. ......+.++||||-.
T Consensus        47 pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~  102 (592)
T 1f5n_A           47 YRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLG  102 (592)
T ss_dssp             TTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBC
T ss_pred             CCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccccCCCceEEEecCCCcC
Confidence            7999999999999876321121111 222222222  11 1223467899999964

>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=97.45  E-value=5.8e-06  Score=64.13  Aligned_cols=91  Identities=14%  Similarity=0.093  Sum_probs=50.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh--hhccc--------hhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER--YHSLA--------PMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--~~~~~--------~~~~~~~d~~i~   70 (181)
                      |||||||+.++|...-... ..++.+...........+......+||..|...  ....+        ..++....+.++
T Consensus        48 pGsGKSTia~~La~~l~~~-~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~~~l~~~~G~~v  126 (469)
T 1bif_A           48 PARGKTYISKKLTRYLNFI-GVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVRKFLSEEGGHVA  126 (469)
T ss_dssp             TTSSHHHHHHHHHHHHHHT-TCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHHHHHHTTCCSEE
T ss_pred             CCCCHHHHHHHHHHHHhcc-CCCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHHHHHHhCCCCEE
Confidence            7999999999987543211 112222110000000111112345899999732  22222        456666788899


Q ss_pred             EEECCChhHHHHHHHHHHHHHHh
Q 030225           71 VYDITSMDSFERAKKWVQELQRQ   93 (181)
Q Consensus        71 v~d~~~~~s~~~~~~~~~~~~~~   93 (181)
                      |+|.++. .......|+..+...
T Consensus       127 V~D~tn~-~~~~R~~~~~~~~~~  148 (469)
T 1bif_A          127 VFDATNT-TRERRAMIFNFGEQN  148 (469)
T ss_dssp             EEESCCC-SHHHHHHHHHHHHHH
T ss_pred             EEeCCCC-CHHHHHHHHHHHHhc
Confidence            9999986 455566676666554

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=97.31  E-value=0.00039  Score=55.62  Aligned_cols=66  Identities=20%  Similarity=0.235  Sum_probs=34.7

Q ss_pred             EEEEEeCCChh-------------hhhccchhhccCCc-EEEEEEECCChhHH-HHHHHHHHHHHHhCCCCceEEEEEeC
Q 030225           42 KFDIWDTAGQE-------------RYHSLAPMYYRGAA-AAVVVYDITSMDSF-ERAKKWVQELQRQGNPNLIMFLVANK  106 (181)
Q Consensus        42 ~~~i~D~~G~~-------------~~~~~~~~~~~~~d-~~i~v~d~~~~~s~-~~~~~~~~~~~~~~~~~~p~ivi~nK  106 (181)
                      .+.+.|.||-.             ....+...++.+.. +++++.+ .+.+.. .....+...+   ...+.+.++|+||
T Consensus       148 ~LlLlDePGi~~~~t~~LD~~~~~~i~~li~~~l~~~~~iil~vvt-~~~d~a~~~~l~la~~v---~~~g~rtI~VlTK  223 (608)
T 3szr_A          148 DLTLIDLPGITRVAVGNQPADIGYKIKTLIKKYIQRQETISLVVVP-SNVDIATTEALSMAQEV---DPEGDRTIGILTK  223 (608)
T ss_dssp             CEEEEECCC------CCSSCSHHHHHHHHHHHHTTSSSCCEEEEEE-SSSCTTTCHHHHHHHHH---CSSCCSEEEEEEC
T ss_pred             ceeEeeCCCccccccCCCCHHHHHHHHHHHHHHHhcCCCCceEEEe-ccchhccHHHHHHHHHH---hhcCCceEEEecc
Confidence            47899999621             22234445555544 4444444 332211 1122332333   3356789999999


Q ss_pred             CCCcc
Q 030225          107 VDLEE  111 (181)
Q Consensus       107 ~D~~~  111 (181)
                      .|+.+
T Consensus       224 ~Dlv~  228 (608)
T 3szr_A          224 PDLVD  228 (608)
T ss_dssp             GGGSS
T ss_pred             hhhcC
Confidence            99753

>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=97.05  E-value=0.00068  Score=50.09  Aligned_cols=91  Identities=11%  Similarity=0.057  Sum_probs=51.4

Q ss_pred             EEEEEeCCChhhhhccc-hh-----hccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC
Q 030225           42 KFDIWDTAGQERYHSLA-PM-----YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV  115 (181)
Q Consensus        42 ~~~i~D~~G~~~~~~~~-~~-----~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~  115 (181)
                      .+.++|++|........ ..     ..-..|-.+++.|+....   ++...+..+....   ....+++||.|...    
T Consensus       213 d~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~~---~~~~~~~~~~~~~---~it~iilTKlD~~a----  282 (328)
T 3e70_C          213 DVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAGN---AIVEQARQFNEAV---KIDGIILTKLDADA----  282 (328)
T ss_dssp             SEEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGTT---HHHHHHHHHHHHS---CCCEEEEECGGGCS----
T ss_pred             hhhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHHH---HHHHHHHHHHHhc---CCCEEEEeCcCCcc----
Confidence            45679999863222110 00     112368889999976542   2333333443321   24577789998522    


Q ss_pred             CHHHHHHHHHHcCCeEEEEecCCCCCHHH
Q 030225          116 KNEEGELYAQENGLSFLETSAKSAHNVNE  144 (181)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  144 (181)
                      ..-.........+.|+.+++  +|+++++
T Consensus       283 ~~G~~l~~~~~~~~pi~~i~--~Ge~v~d  309 (328)
T 3e70_C          283 RGGAALSISYVIDAPILFVG--VGQGYDD  309 (328)
T ss_dssp             CCHHHHHHHHHHTCCEEEEE--CSSSTTC
T ss_pred             chhHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            12234556677789988887  6666543

>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=96.77  E-value=0.001  Score=51.09  Aligned_cols=15  Identities=20%  Similarity=0.217  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +++|||||||.|++.
T Consensus        76 ~~~GKStLLN~llg~   90 (447)
T 3q5d_A           76 FRKGKSFLMDFMLRY   90 (447)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHhhh
Confidence            689999999999863

>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=96.40  E-value=0.005  Score=41.81  Aligned_cols=85  Identities=9%  Similarity=0.013  Sum_probs=55.3

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhC--CCCceEEEEEeCCCCcccccCCHH
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQG--NPNLIMFLVANKVDLEEKRKVKNE  118 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~p~ivi~nK~D~~~~~~~~~~  118 (181)
                      +.+.++|+|+..  .......+..+|.++++...+.. + ..+...++.+....  .++.++.+|.|+.|....   ...
T Consensus        76 yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~~~---~~~  148 (206)
T 4dzz_A           76 YDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPL-D-FSAAGSVVTVLEAQAYSRKVEARFLITRKIEMAT---MLN  148 (206)
T ss_dssp             SSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTT-T-HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTTEE---EEH
T ss_pred             CCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHH-H-HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCCch---HHH
Confidence            568899999865  22334566679999999987644 4 66666666665543  245677899999985322   223


Q ss_pred             HHHHHHHHcCCeEE
Q 030225          119 EGELYAQENGLSFL  132 (181)
Q Consensus       119 ~~~~~~~~~~~~~~  132 (181)
                      +..++.++++.+++
T Consensus       149 ~~~~~l~~~~~~vl  162 (206)
T 4dzz_A          149 VLKESIKDTGVKAF  162 (206)
T ss_dssp             HHHHHHHHHTCCBC
T ss_pred             HHHHHHHHcCCcee
Confidence            44555555665544

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.97  E-value=0.043  Score=42.08  Aligned_cols=84  Identities=14%  Similarity=0.052  Sum_probs=45.2

Q ss_pred             EEEEEEEeCCChhhhhc-cch-----hhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCce-EEEEEeCCCCccc
Q 030225           40 TIKFDIWDTAGQERYHS-LAP-----MYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEK  112 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~-~~~-----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivi~nK~D~~~~  112 (181)
                      .+.+.|+||||...... +..     ..+..++.+++|+|+......   ......+...    .+ .-+|+||.|....
T Consensus       183 ~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~~---~~~~~~f~~~----l~i~gvVlnK~D~~~~  255 (433)
T 2xxa_A          183 FYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDA---ANTAKAFNEA----LPLTGVVLTKVDGDAR  255 (433)
T ss_dssp             TCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTTH---HHHHHHHHHH----SCCCCEEEECTTSSSC
T ss_pred             CCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHHH---HHHHHHHhcc----CCCeEEEEecCCCCcc
Confidence            35688999999643211 111     123468899999998754322   2222222221    23 3468899997421


Q ss_pred             ccCCHHHHHHHHHHcCCeEEEE
Q 030225          113 RKVKNEEGELYAQENGLSFLET  134 (181)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~  134 (181)
                      .    ..+.......+.|+.++
T Consensus       256 ~----g~~l~i~~~~~~Pi~~i  273 (433)
T 2xxa_A          256 G----GAALSIRHITGKPIKFL  273 (433)
T ss_dssp             C----THHHHHHHHHCCCEEEE
T ss_pred             H----HHHHHHHHHHCCCeEEE
Confidence            1    12334455556664433

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=95.80  E-value=0.0021  Score=47.04  Aligned_cols=16  Identities=31%  Similarity=0.374  Sum_probs=12.9

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||||||||+|.|.+..
T Consensus       182 sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          182 SGVGKSSLLNAISPEL  197 (307)
T ss_dssp             HHHHHHHHHHHHCC--
T ss_pred             CCCCHHHHHHHhcccc
Confidence            5899999999998643

>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=95.69  E-value=0.015  Score=42.36  Aligned_cols=13  Identities=38%  Similarity=0.716  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHh
Q 030225            1 MGTGKTSLVLRFV   13 (181)
Q Consensus         1 ~~~GKttLl~~l~   13 (181)
                      ||||||||+|.|.
T Consensus       174 sG~GKSTLln~l~  186 (302)
T 2yv5_A          174 SGVGKSSILSRLT  186 (302)
T ss_dssp             TTSSHHHHHHHHH
T ss_pred             CCCCHHHHHHHHH
Confidence            6999999999998

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=95.65  E-value=0.058  Score=36.88  Aligned_cols=85  Identities=14%  Similarity=0.103  Sum_probs=55.8

Q ss_pred             EEEEEEeCCCh-hhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHH
Q 030225           41 IKFDIWDTAGQ-ERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEE  119 (181)
Q Consensus        41 ~~~~i~D~~G~-~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~  119 (181)
                      +.+.++|+|+. ...  .....+..+|.+|++...+ ..+...+...++.+....  +.++.++.|+.|....  ....+
T Consensus        68 yD~viiD~p~~~~~~--~~~~~l~~aD~viiv~~~~-~~~~~~~~~~~~~l~~~~--~~~~~vv~N~~~~~~~--~~~~~  140 (209)
T 3cwq_A           68 YQNIVIDTQARPEDE--DLEALADGCDLLVIPSTPD-ALALDALMLTIETLQKLG--NNRFRILLTIIPPYPS--KDGDE  140 (209)
T ss_dssp             CSEEEEEEECCCSSS--HHHHHHHTSSEEEEEECSS-HHHHHHHHHHHHHHHHTC--SSSEEEEECSBCCTTS--CHHHH
T ss_pred             CCEEEEeCCCCcCcH--HHHHHHHHCCEEEEEecCC-chhHHHHHHHHHHHHhcc--CCCEEEEEEecCCccc--hHHHH
Confidence            56889999986 322  2345677899999998864 566777777777776632  4568889999985320  11344


Q ss_pred             HHHHHHHcCCeEE
Q 030225          120 GELYAQENGLSFL  132 (181)
Q Consensus       120 ~~~~~~~~~~~~~  132 (181)
                      ..+.+++.+.+++
T Consensus       141 ~~~~l~~~g~~v~  153 (209)
T 3cwq_A          141 ARQLLTTAGLPLF  153 (209)
T ss_dssp             HHHHHHHTTCCBC
T ss_pred             HHHHHHHcCCchh
Confidence            4555555665544

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=95.60  E-value=0.11  Score=36.09  Aligned_cols=91  Identities=12%  Similarity=0.133  Sum_probs=60.7

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHH
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEE  119 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~  119 (181)
                      .+.+.|+|+|+...  ......+..+|.++++... +..+...+...++.+.....+...+.+|.|+.+...  ....  
T Consensus       118 ~yD~viiD~p~~~~--~~~~~~l~~ad~viiv~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~v~N~~~~~~--~~~~--  190 (245)
T 3ea0_A          118 FYDYIIVDFGASID--HVGVWVLEHLDELCIVTTP-SLQSLRRAGQLLKLCKEFEKPISRIEIILNRADTNS--RITS--  190 (245)
T ss_dssp             HCSEEEEEEESSCC--TTHHHHGGGCSEEEEEECS-SHHHHHHHHHHHHHHHTCSSCCSCEEEEEESTTSCT--TSCH--
T ss_pred             hCCEEEEeCCCCCc--hHHHHHHHHCCEEEEEecC-cHHHHHHHHHHHHHHHHhCCCccceEEEEecCCCCC--CCCH--
Confidence            35688999987542  2345567789999999886 467778888888887665434556888899998533  2222  


Q ss_pred             HHHHHHHcCCeEEEEecCC
Q 030225          120 GELYAQENGLSFLETSAKS  138 (181)
Q Consensus       120 ~~~~~~~~~~~~~~~Sa~~  138 (181)
                       ..+.+..+.+++..-..+
T Consensus       191 -~~~~~~~~~~v~~~ip~~  208 (245)
T 3ea0_A          191 -DEIEKVIGRPISKRIPQD  208 (245)
T ss_dssp             -HHHHHHHTSCEEEEECCC
T ss_pred             -HHHHHHhCCCeEEECCCC
Confidence             233444677776553333

>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=95.52  E-value=0.0053  Score=41.14  Aligned_cols=16  Identities=44%  Similarity=0.605  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+.-
T Consensus         9 nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            9 PGVGKTTLVKKIVERL   24 (178)
T ss_dssp             TTSSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            6999999999988643

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.51  E-value=0.0053  Score=41.05  Aligned_cols=15  Identities=13%  Similarity=0.361  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||++.|.+.
T Consensus        14 sGsGKSTL~~~L~~~   28 (180)
T 1kgd_A           14 HGVGRRHIKNTLITK   28 (180)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHhh
Confidence            699999999999863

>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=95.36  E-value=0.0012  Score=44.75  Aligned_cols=15  Identities=33%  Similarity=0.618  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||+++|+..
T Consensus        10 SG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A           10 SGTGKSTLLKKLFAE   24 (186)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHh
Confidence            699999999999854

>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=95.29  E-value=0.007  Score=40.61  Aligned_cols=15  Identities=20%  Similarity=0.368  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||++.|.+.
T Consensus        18 ~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           18 PGSGKSTIAEALANL   32 (191)
T ss_dssp             TTSCHHHHHHHHHTC
T ss_pred             CCCCHHHHHHHHHhc
Confidence            799999999999875

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.09  E-value=0.0086  Score=40.73  Aligned_cols=14  Identities=29%  Similarity=0.681  Sum_probs=12.8

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|||||||++.|.+
T Consensus        13 sGaGKSTLl~~L~~   26 (198)
T 1lvg_A           13 SGAGKSTLLKKLFQ   26 (198)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHh
Confidence            69999999999976

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.06  E-value=0.0088  Score=40.56  Aligned_cols=15  Identities=60%  Similarity=0.756  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.|.+.
T Consensus        16 ~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A           16 SGAGKTSLVRALVKA   30 (205)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHhh
Confidence            699999999999864

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.02  E-value=0.0088  Score=40.93  Aligned_cols=15  Identities=27%  Similarity=0.441  Sum_probs=12.9

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.|.+.
T Consensus        31 sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           31 PGSGKSTLSNPLAAA   45 (208)
T ss_dssp             TTSCTHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999988753

>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=94.99  E-value=0.0095  Score=40.73  Aligned_cols=16  Identities=19%  Similarity=0.231  Sum_probs=13.7

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+..
T Consensus        29 nGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           29 SAVGKSTVVRCLRERI   44 (207)
T ss_dssp             TTSSHHHHHHHHHHHS
T ss_pred             CCCCHHHHHHHHHhhC
Confidence            6999999999998643

>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=94.98  E-value=0.0098  Score=39.70  Aligned_cols=15  Identities=40%  Similarity=0.731  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||+++|...
T Consensus        15 sGsGKTTl~~~l~~~   29 (174)
T 1np6_A           15 SGTGKTTLLKKLIPA   29 (174)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHh
Confidence            699999999999864

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=94.90  E-value=0.0081  Score=39.81  Aligned_cols=13  Identities=23%  Similarity=0.570  Sum_probs=11.3

Q ss_pred             CCCchhHHHHHHh
Q 030225            1 MGTGKTSLVLRFV   13 (181)
Q Consensus         1 ~~~GKttLl~~l~   13 (181)
                      ||||||||++.+.
T Consensus        18 nGsGKSTl~~~~~   30 (171)
T 4gp7_A           18 SGSGKSTFAKKHF   30 (171)
T ss_dssp             TTSCHHHHHHHHS
T ss_pred             CCCCHHHHHHHHc
Confidence            6999999999755

>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=94.89  E-value=0.01  Score=41.10  Aligned_cols=16  Identities=44%  Similarity=0.684  Sum_probs=13.8

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.|.+..
T Consensus        25 sGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           25 SGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             TTSCHHHHHHHHHHHS
T ss_pred             CCCCHHHHHHHHhccC
Confidence            6999999999998743

>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=94.73  E-value=0.011  Score=44.08  Aligned_cols=17  Identities=35%  Similarity=0.370  Sum_probs=14.7

Q ss_pred             CCCchhHHHHHHhhCCC
Q 030225            1 MGTGKTSLVLRFVKGQF   17 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~   17 (181)
                      ||||||||+|.|.+...
T Consensus       224 sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          224 SGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             TTSSHHHHHHHHHCCSS
T ss_pred             CCccHHHHHHHHhcccc
Confidence            79999999999997543

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=94.73  E-value=0.012  Score=40.64  Aligned_cols=28  Identities=4%  Similarity=0.081  Sum_probs=19.1

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHHHHhhCCC
Q 030225          128 GLSFLETSAKSAHNVNELFYEIAKRLAEVNPS  159 (181)
Q Consensus       128 ~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~  159 (181)
                      .+.++.+.    .++++.+..+.+.+....+.
T Consensus       184 ~~d~iiv~----~~~~ea~~~~~~ii~~~~~~  211 (218)
T 1z6g_A          184 NFNLSIIN----DDLTLTYQQLKNYLLNSYIH  211 (218)
T ss_dssp             CCSEEEEC----SSHHHHHHHHHHHHHHHTTC
T ss_pred             CCCEEEEC----CCHHHHHHHHHHHHHHHHHh
Confidence            45555443    46889999888888776544

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=94.62  E-value=0.014  Score=38.46  Aligned_cols=15  Identities=27%  Similarity=0.572  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||++.|.+.
T Consensus        13 ~GsGKSTl~~~La~~   27 (173)
T 1kag_A           13 MGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999988763

>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=94.52  E-value=0.015  Score=38.14  Aligned_cols=30  Identities=10%  Similarity=0.006  Sum_probs=20.2

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHHHHhhCCC
Q 030225          129 LSFLETSAKSAHNVNELFYEIAKRLAEVNPS  159 (181)
Q Consensus       129 ~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~  159 (181)
                      ...+.+.+ ++..++++.+.|...+....++
T Consensus       141 ~~~~~id~-~~~~~~ev~~~I~~~~~~~~~~  170 (173)
T 3kb2_A          141 LHTYSWDT-GQWSSDEIAKDIIFLVELEHHH  170 (173)
T ss_dssp             SCEEEEET-TTSCHHHHHHHHHHHHHHGGGC
T ss_pred             CCEEEEEC-CCCCHHHHHHHHHHHHhCCCcc
Confidence            34555553 2347999999999888775543

>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=94.48  E-value=0.015  Score=39.59  Aligned_cols=26  Identities=8%  Similarity=0.197  Sum_probs=18.4

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225          129 LSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus       129 ~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.++-+    ++++++.++.|...+.+.+.
T Consensus       167 fd~viv----Nd~l~~a~~~l~~ii~~~~~  192 (197)
T 3ney_A          167 FDLSLV----NNGVDETLKKLQEAFDQACS  192 (197)
T ss_dssp             CSEEEE----ESCHHHHHHHHHHHHHHCCC
T ss_pred             CCEEEE----CCCHHHHHHHHHHHHHHccC
Confidence            455555    34699999999988866543

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=94.48  E-value=0.015  Score=38.38  Aligned_cols=14  Identities=29%  Similarity=0.615  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.++|..
T Consensus        11 ~GsGKST~a~~L~~   24 (181)
T 1ly1_A           11 PGSGKSTWAREFIA   24 (181)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHh
Confidence            79999999999986

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=94.45  E-value=0.014  Score=40.50  Aligned_cols=16  Identities=25%  Similarity=0.335  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        39 nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           39 SGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TTSCHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHhcCC
Confidence            6999999999887643

>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=94.44  E-value=0.014  Score=40.81  Aligned_cols=16  Identities=19%  Similarity=0.212  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        40 nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           40 SGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCcHHHHHHHHhcCC
Confidence            6999999999887643

>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=94.43  E-value=0.016  Score=38.84  Aligned_cols=14  Identities=29%  Similarity=0.517  Sum_probs=12.7

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||||||||++.|.+
T Consensus        11 ~GaGKSTl~~~L~~   24 (189)
T 2bdt_A           11 AGVGKSTTCKRLAA   24 (189)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHhc
Confidence            69999999999975

>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=94.40  E-value=0.014  Score=42.51  Aligned_cols=16  Identities=38%  Similarity=0.503  Sum_probs=14.0

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||||||||+|.|.+..
T Consensus       178 sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          178 SGVGKSSLLNAINPGL  193 (301)
T ss_dssp             TTSSHHHHHHHHSTTC
T ss_pred             CCCcHHHHHHHhcccc
Confidence            7999999999998754

>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=94.36  E-value=0.017  Score=38.32  Aligned_cols=14  Identities=36%  Similarity=0.586  Sum_probs=12.6

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|||||||+.+|..
T Consensus        13 sGsGKTTl~~~L~~   26 (169)
T 1xjc_A           13 KHSGKTTLMEKWVA   26 (169)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999885

>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=94.33  E-value=0.018  Score=37.78  Aligned_cols=16  Identities=38%  Similarity=0.713  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      .|+|||||++.+.+.-
T Consensus        42 nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           42 LGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             TTSSHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHhC
Confidence            5899999999998754

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=94.32  E-value=0.017  Score=39.14  Aligned_cols=14  Identities=29%  Similarity=0.506  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||||||||++.|.+
T Consensus        38 ~GsGKSTl~~~L~~   51 (200)
T 4eun_A           38 SGSGKTTIAHGVAD   51 (200)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998865

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=94.32  E-value=0.017  Score=39.10  Aligned_cols=16  Identities=25%  Similarity=0.418  Sum_probs=13.8

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||||||||++.|.+.-
T Consensus        15 ~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A           15 SGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             TTSCHHHHHHHHHHCT
T ss_pred             CCCCHHHHHHHHHHhh
Confidence            7999999999988654

>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=94.31  E-value=0.016  Score=37.91  Aligned_cols=12  Identities=25%  Similarity=0.473  Sum_probs=11.4

Q ss_pred             CCCchhHHHHHH
Q 030225            1 MGTGKTSLVLRF   12 (181)
Q Consensus         1 ~~~GKttLl~~l   12 (181)
                      |||||||+.+.|
T Consensus        10 ~GsGKsT~a~~L   21 (179)
T 3lw7_A           10 PGSGKSEFAKLL   21 (179)
T ss_dssp             TTSCHHHHHHHH
T ss_pred             CCCCHHHHHHHH
Confidence            799999999999

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=94.30  E-value=0.017  Score=39.25  Aligned_cols=18  Identities=17%  Similarity=0.337  Sum_probs=14.5

Q ss_pred             CHHHHHHHHHHHHHhhCC
Q 030225          141 NVNELFYEIAKRLAEVNP  158 (181)
Q Consensus       141 gi~~~~~~l~~~~~~~~~  158 (181)
                      .++++.+.|.+.+....+
T Consensus       182 ~~e~~~~~i~~~i~~~~~  199 (204)
T 2qor_A          182 DLARTYAELREYLLGSYP  199 (204)
T ss_dssp             SHHHHHHHHHHHHHHHCT
T ss_pred             CHHHHHHHHHHHHHHHhh
Confidence            799999999988876544

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=94.29  E-value=0.018  Score=40.55  Aligned_cols=16  Identities=19%  Similarity=0.204  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        33 nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           33 TGAGKSVFLELIAGIV   48 (240)
T ss_dssp             TTSSHHHHHHHHHTSS
T ss_pred             CCCCHHHHHHHHhCCC
Confidence            5999999999988653

>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=94.28  E-value=0.017  Score=38.23  Aligned_cols=14  Identities=21%  Similarity=0.328  Sum_probs=12.8

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        12 ~GsGKST~a~~La~   25 (178)
T 1qhx_A           12 SSAGKSGIVRCLQS   25 (178)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999875

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=94.27  E-value=0.018  Score=39.28  Aligned_cols=15  Identities=27%  Similarity=0.463  Sum_probs=12.9

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.|.+.
T Consensus        15 ~GsGKSTl~~~l~~~   29 (211)
T 3asz_A           15 TASGKTTLAQALART   29 (211)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999988763

>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=94.19  E-value=0.019  Score=39.27  Aligned_cols=16  Identities=25%  Similarity=0.316  Sum_probs=13.9

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||||||||++.|...-
T Consensus        17 sGsGKsTl~~~L~~~~   32 (208)
T 3tau_A           17 SGVGKGTVREAVFKDP   32 (208)
T ss_dssp             TTSCHHHHHHHHHHST
T ss_pred             CCCCHHHHHHHHHhhC
Confidence            6999999999998653

>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=94.15  E-value=0.02  Score=38.06  Aligned_cols=15  Identities=40%  Similarity=0.554  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+.+.
T Consensus        47 ~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           47 PGVGKTHLAVATLKA   61 (180)
T ss_dssp             SSSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999988754

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=94.14  E-value=0.02  Score=38.83  Aligned_cols=15  Identities=27%  Similarity=0.404  Sum_probs=12.8

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||.+.|...
T Consensus        27 ~GsGKSTla~~L~~~   41 (202)
T 3t61_A           27 SGSGKSSVGEAIAEA   41 (202)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999988653

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=94.11  E-value=0.021  Score=38.61  Aligned_cols=15  Identities=33%  Similarity=0.457  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|+|||||++.+.+.
T Consensus        10 nG~GKTTll~~l~g~   24 (189)
T 2i3b_A           10 PGVGKTTLIHKASEV   24 (189)
T ss_dssp             CSSCHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHhh
Confidence            699999999998763

>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=94.09  E-value=0.019  Score=39.63  Aligned_cols=16  Identities=31%  Similarity=0.327  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        44 NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           44 NGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHhcCC
Confidence            5999999999888653

>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=94.07  E-value=0.019  Score=40.24  Aligned_cols=16  Identities=31%  Similarity=0.540  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        40 nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           40 VGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TTSSHHHHHHHHTTCS
T ss_pred             CCCCHHHHHHHHhcCC
Confidence            5999999999887653

>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=94.05  E-value=0.022  Score=37.63  Aligned_cols=14  Identities=21%  Similarity=0.480  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||||||||++.|.+
T Consensus        17 ~GsGKSTl~~~l~~   30 (175)
T 1knq_A           17 SGSGKSAVASEVAH   30 (175)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=94.02  E-value=0.02  Score=40.84  Aligned_cols=16  Identities=19%  Similarity=0.245  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        41 nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           41 SGSGKSTFLRCINFLE   56 (262)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHhcCC
Confidence            5999999999888643

>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=93.99  E-value=0.02  Score=40.63  Aligned_cols=16  Identities=25%  Similarity=0.291  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        42 nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           42 NGSGKSTLINVITGFL   57 (257)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHhCCC
Confidence            5999999999888654

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=93.98  E-value=0.02  Score=39.37  Aligned_cols=15  Identities=33%  Similarity=0.406  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+.
T Consensus        31 nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           31 AGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             TTSSTTHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhcC
Confidence            599999999999875

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=93.91  E-value=0.024  Score=37.88  Aligned_cols=14  Identities=21%  Similarity=0.517  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        10 ~GsGKsT~~~~L~~   23 (194)
T 1nks_A           10 PGVGKSTVLAKVKE   23 (194)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>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=93.90  E-value=0.023  Score=39.11  Aligned_cols=15  Identities=33%  Similarity=0.470  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||++.+.+.
T Consensus        34 nGsGKSTll~~l~g~   48 (231)
T 4a74_A           34 FGSGKTQLAHTLAVM   48 (231)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999999874

>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=93.90  E-value=0.023  Score=40.15  Aligned_cols=15  Identities=27%  Similarity=0.337  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus        38 nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           38 NGAGKSTLGKILAGD   52 (250)
T ss_dssp             TTSSHHHHHHHHHTC
T ss_pred             CCCCHHHHHHHHhCC
Confidence            599999999999875

>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=93.88  E-value=0.022  Score=40.22  Aligned_cols=16  Identities=25%  Similarity=0.304  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        44 nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           44 SGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHhcCC
Confidence            5999999999887653

>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=93.87  E-value=0.022  Score=40.07  Aligned_cols=15  Identities=20%  Similarity=0.293  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus        37 nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           37 SGGGKSTIFSLLERF   51 (243)
T ss_dssp             TTSSHHHHHHHHTTS
T ss_pred             CCCCHHHHHHHHhcC
Confidence            599999999998864

>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=93.85  E-value=0.022  Score=39.97  Aligned_cols=16  Identities=25%  Similarity=0.225  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        41 nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           41 NGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHhCCC
Confidence            5999999999888653

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10

Probab=93.84  E-value=0.48  Score=33.24  Aligned_cols=83  Identities=11%  Similarity=0.016  Sum_probs=52.9

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHH
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG  120 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~  120 (181)
                      +.+.|+|+|+...  ......+..+|.+|++... +..+...+...++.+...  ...+..+|.|+.+.....    ...
T Consensus       111 yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~-~~~~~~~~~~~~~~l~~~--~~~~~~vv~N~~~~~~~~----~~~  181 (263)
T 1hyq_A          111 TDILLLDAPAGLE--RSAVIAIAAAQELLLVVNP-EISSITDGLKTKIVAERL--GTKVLGVVVNRITTLGIE----MAK  181 (263)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHHHSSEEEEEECS-SHHHHHHHHHHHHHHHHH--TCEEEEEEEEEECTTTHH----HHH
T ss_pred             CCEEEEeCCCCCC--hHHHHHHHHCCEEEEEeCC-ChhHHHHHHHHHHHHHhc--CCCeeEEEEccCCccccc----chH
Confidence            5688999997543  2234456778999999885 456677777777777655  234566889998853221    233


Q ss_pred             HHHHHHcCCeEE
Q 030225          121 ELYAQENGLSFL  132 (181)
Q Consensus       121 ~~~~~~~~~~~~  132 (181)
                      ..+.+..+.+++
T Consensus       182 ~~~~~~~~~~~~  193 (263)
T 1hyq_A          182 NEIEAILEAKVI  193 (263)
T ss_dssp             HHHHHHTTSCEE
T ss_pred             HHHHHHhCCCeE
Confidence            444455666543

>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=93.84  E-value=0.022  Score=40.59  Aligned_cols=16  Identities=19%  Similarity=0.291  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        59 NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           59 SGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCcHHHHHHHHHcCC
Confidence            5999999999888653

>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=93.83  E-value=0.022  Score=40.88  Aligned_cols=16  Identities=31%  Similarity=0.368  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        43 nGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           43 NGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHHcCC
Confidence            5999999999888643

>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=93.82  E-value=0.022  Score=40.71  Aligned_cols=16  Identities=25%  Similarity=0.304  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        46 nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           46 NGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TTSCHHHHHHHHTSSS
T ss_pred             CCCcHHHHHHHHhcCC
Confidence            6999999999888643

>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=93.82  E-value=0.023  Score=39.61  Aligned_cols=16  Identities=38%  Similarity=0.565  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        43 nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           43 TGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHhCCC
Confidence            5999999999888653

>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=93.80  E-value=0.023  Score=40.36  Aligned_cols=16  Identities=25%  Similarity=0.179  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        50 NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           50 NGAGKTTTLRIISTLI   65 (256)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHhcCC
Confidence            5999999999988653

>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=93.77  E-value=0.024  Score=40.13  Aligned_cols=16  Identities=31%  Similarity=0.505  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        35 NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           35 NGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCcHHHHHHHHhCCC
Confidence            5999999999887653

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=93.76  E-value=0.014  Score=38.79  Aligned_cols=15  Identities=33%  Similarity=0.503  Sum_probs=12.9

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.|.+.
T Consensus        11 SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A           11 SDSGKTTLITRMMPI   25 (171)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            689999999998864

>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=93.76  E-value=0.025  Score=39.69  Aligned_cols=28  Identities=11%  Similarity=0.089  Sum_probs=18.8

Q ss_pred             EEEEecCCCCCHHHHHHHHHHHHHhhCCCCc
Q 030225          131 FLETSAKSAHNVNELFYEIAKRLAEVNPSRQ  161 (181)
Q Consensus       131 ~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~~~  161 (181)
                      ++.+.+..   -+++++.+.+.+.+.-++.+
T Consensus       213 ~~~id~~~---~~~v~~~i~~~l~~~~~~~~  240 (246)
T 2bbw_A          213 LHQFSGTE---TNKIWPYVYTLFSNKITPIQ  240 (246)
T ss_dssp             EEEEECSC---HHHHHHHHHHHHHTTSCCCC
T ss_pred             EEEECCCC---cHHHHHHHHHHHHhhCCCCC
Confidence            55666542   38999999888876555443

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=93.75  E-value=0.094  Score=36.77  Aligned_cols=67  Identities=13%  Similarity=0.135  Sum_probs=46.8

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCC------CCceEEEEEeCCCC
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGN------PNLIMFLVANKVDL  109 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~------~~~p~ivi~nK~D~  109 (181)
                      .+.+.++|+|+...  ......+..+|.+|++... +..+...+...+..+.....      +..+..+|+|+.+.
T Consensus       113 ~yD~viiD~p~~~~--~~~~~~l~~ad~vi~v~~~-~~~s~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v~N~~~~  185 (260)
T 3q9l_A          113 DFEFIVCDSPAGIE--TGALMALYFADEAIITTNP-EVSSVRDSDRILGILASKSRRAENGEEPIKEHLLLTRYNP  185 (260)
T ss_dssp             TCSEEEEECCSSSS--HHHHHHHHTCSEEEEEECS-SHHHHHHHHHHHHHHTTSSHHHHTTCSCCEEEEEEEEECH
T ss_pred             CCCEEEEcCCCCCC--HHHHHHHHhCCEEEEEecC-ChhHHHHHHHHHHHHHHhccccccccCCcceEEEEecCCc
Confidence            46788999998543  2445567789999999986 45667777776666644321      22567888999885

>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=93.71  E-value=0.026  Score=40.31  Aligned_cols=15  Identities=27%  Similarity=0.452  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus        55 NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           55 NGSGKSTLSATLAGR   69 (267)
T ss_dssp             TTSSHHHHHHHHHTC
T ss_pred             CCCCHHHHHHHHhCC
Confidence            599999999999875

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=93.70  E-value=0.11  Score=33.03  Aligned_cols=15  Identities=20%  Similarity=0.233  Sum_probs=12.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        36 ~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           36 AGSPFETVARYFHKN   50 (143)
T ss_dssp             TTCCHHHHHGGGCCT
T ss_pred             CCccHHHHHHHHHHh
Confidence            799999999776643

>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=93.70  E-value=0.025  Score=37.82  Aligned_cols=14  Identities=36%  Similarity=0.415  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        14 ~GsGKST~~~~L~~   27 (193)
T 2rhm_A           14 PATGKTTLSQALAT   27 (193)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999864

>3uc9_A Increased recombination centers protein 6; rossmann-fold, clathrin accessory factor; 1.80A {Saccharomyces cerevisiae}

Probab=93.70  E-value=0.073  Score=37.07  Aligned_cols=73  Identities=14%  Similarity=0.137  Sum_probs=36.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEE-eC-CChhhh----hcc-chhhccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIW-DT-AGQERY----HSL-APMYYRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~-D~-~G~~~~----~~~-~~~~~~~~d~~i~v~d   73 (181)
                      |+.|||+|++++++......   .+   .....+...+....+-|| |. +....+    ... .........++|+|++
T Consensus        38 ~~~~~~~~~~~lf~~~~~~~---~i---~k~v~w~TKYYsa~V~IwVDe~~~l~~W~~EF~SdEA~EVR~viggII~~f~  111 (233)
T 3uc9_A           38 HNFLKTQFLQDLFHCSSTGI---SI---VKDQTWENRYYKVHFDLYIDSCKDIPVWVEEFITPECEPLRNVMAGIILITD  111 (233)
T ss_dssp             GHHHHHHHHHHHHCCCCCSS---CE---EEEEEEECSSCEEEEEEEEEEESCHHHHHHHHTSGGGHHHHHTEEEEEEEEC
T ss_pred             ccccHHHHHHHHhccccccc---cc---ccCCeeeeceEEEEcceEEEecCCHHHHHHHhcCHHHHHHHHhcceEEEEEe
Confidence            46799999999998742211   11   122333445555555554 32 222111    111 1111223478999997


Q ss_pred             CCChhH
Q 030225           74 ITSMDS   79 (181)
Q Consensus        74 ~~~~~s   79 (181)
                      ...+..
T Consensus       112 ~p~~~~  117 (233)
T 3uc9_A          112 IRQTKP  117 (233)
T ss_dssp             HHHHCG
T ss_pred             CCCcch
Confidence            554433

>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=93.69  E-value=0.025  Score=37.69  Aligned_cols=14  Identities=21%  Similarity=0.188  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        12 ~GsGKsT~~~~L~~   25 (192)
T 1kht_A           12 PGVGSTTSSQLAMD   25 (192)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999864

>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=93.69  E-value=0.027  Score=38.16  Aligned_cols=17  Identities=12%  Similarity=0.038  Sum_probs=13.9

Q ss_pred             CCHHHHHHHHHHHHHhh
Q 030225          140 HNVNELFYEIAKRLAEV  156 (181)
Q Consensus       140 ~gi~~~~~~l~~~~~~~  156 (181)
                      ..++++.+.|+..+.+.
T Consensus       179 ~~~~e~v~~i~~~l~~~  195 (200)
T 3uie_A          179 TSPIEMAEKVVGYLDNK  195 (200)
T ss_dssp             CCHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHc
Confidence            47999999998888665

>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=93.67  E-value=0.026  Score=41.29  Aligned_cols=15  Identities=13%  Similarity=0.118  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.|.+.
T Consensus        99 sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           99 VAVGKSTTARVLQAL  113 (312)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHhh
Confidence            699999999988763

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=93.63  E-value=0.028  Score=37.89  Aligned_cols=25  Identities=20%  Similarity=0.300  Sum_probs=17.3

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          129 LSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       129 ~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ...+.+.+..  .++++.+.+.+.+..
T Consensus       176 ~~~~~Id~~~--~~~~v~~~I~~~l~~  200 (205)
T 2jaq_A          176 FPFFVVDAEL--DVKTQIELIMNKLNS  200 (205)
T ss_dssp             SCEEEEETTS--CHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCC--CHHHHHHHHHHHHHH
Confidence            3456665433  789999988887754

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=93.63  E-value=0.026  Score=40.18  Aligned_cols=15  Identities=20%  Similarity=0.386  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus        55 nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           55 TGSGKSTIAKLLYRF   69 (260)
T ss_dssp             TTSSHHHHHHHHTTS
T ss_pred             CCCCHHHHHHHHhcc
Confidence            599999999998864

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=93.63  E-value=0.026  Score=40.46  Aligned_cols=16  Identities=19%  Similarity=0.260  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        54 nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           54 NGSGKSTVAALLQNLY   69 (271)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHhcCC
Confidence            5999999999888643

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=93.61  E-value=0.027  Score=40.07  Aligned_cols=14  Identities=21%  Similarity=0.617  Sum_probs=12.6

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|||||||++.+.+
T Consensus        34 ~GsGKSTll~~l~g   47 (261)
T 2eyu_A           34 TGSGKSTTIASMID   47 (261)
T ss_dssp             TTCSHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHH
Confidence            69999999999876

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=93.60  E-value=0.026  Score=40.62  Aligned_cols=16  Identities=31%  Similarity=0.341  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        56 NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           56 NGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCcHHHHHHHHhCCC
Confidence            5999999999888643

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=93.55  E-value=0.58  Score=32.17  Aligned_cols=65  Identities=15%  Similarity=0.071  Sum_probs=46.0

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      +.+.++|+|+...  ......+..+|.+|++... +..+...+...+..+...  ...+..+|.|+.+..
T Consensus       112 yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~-~~~~~~~~~~~~~~l~~~--~~~~~~vv~N~~~~~  176 (237)
T 1g3q_A          112 FDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNP-EISCLTDTMKVGIVLKKA--GLAILGFVLNRYGRS  176 (237)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHTTCSEEEEEECS-CHHHHHHHHHHHHHHHHT--TCEEEEEEEEEETSC
T ss_pred             CCEEEEECCCCcC--HHHHHHHHHCCeEEEEecC-CcccHHHHHHHHHHHHhC--CCceEEEEEecCCcc
Confidence            5688999987543  2335567889999999886 456677777777777654  234567889998854

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=93.51  E-value=0.028  Score=39.86  Aligned_cols=16  Identities=25%  Similarity=0.329  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        40 nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           40 NGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             SSSSHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHhCCC
Confidence            5999999999888653

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=93.50  E-value=0.028  Score=40.15  Aligned_cols=15  Identities=27%  Similarity=0.375  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus        42 nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           42 TGSGKSTLLQIVAGL   56 (266)
T ss_dssp             TTSSHHHHHHHHTTS
T ss_pred             CCCcHHHHHHHHhCC
Confidence            599999999988764

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=93.39  E-value=0.026  Score=36.49  Aligned_cols=16  Identities=31%  Similarity=0.528  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|+|||||++.+.+.-
T Consensus        45 ~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           45 EGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             STTTTCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            6999999999988643

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=93.35  E-value=0.03  Score=39.90  Aligned_cols=16  Identities=31%  Similarity=0.327  Sum_probs=13.7

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        39 NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           39 NGSGKTTLLRAISGLL   54 (263)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHhCCC
Confidence            5999999999888754

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=93.32  E-value=0.034  Score=37.63  Aligned_cols=14  Identities=50%  Similarity=0.788  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        34 ~GsGKsTl~~~La~   47 (199)
T 3vaa_A           34 MGAGKTTLGKAFAR   47 (199)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>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=93.30  E-value=0.2  Score=33.76  Aligned_cols=15  Identities=33%  Similarity=0.578  Sum_probs=12.9

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        47 ~G~GKT~l~~~l~~~   61 (226)
T 2chg_A           47 PGTGKTATAIALARD   61 (226)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999988753

>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=93.29  E-value=0.019  Score=39.14  Aligned_cols=14  Identities=36%  Similarity=0.536  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||||||||++.|..
T Consensus         9 ~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            9 DGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            68999999999864

>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=93.28  E-value=0.033  Score=41.57  Aligned_cols=16  Identities=31%  Similarity=0.364  Sum_probs=13.8

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        39 sGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           39 SGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             TTSSHHHHHHHHHTSS
T ss_pred             CCchHHHHHHHHhcCC
Confidence            6999999999988754

>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=93.27  E-value=0.03  Score=41.07  Aligned_cols=16  Identities=38%  Similarity=0.698  Sum_probs=13.9

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.|.+..
T Consensus        13 ~GaGKTTll~~l~~~~   28 (318)
T 1nij_A           13 LGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             SSSSCHHHHHHHHHSC
T ss_pred             CCCCHHHHHHHHHhhc
Confidence            5999999999999753

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.19  E-value=0.035  Score=41.40  Aligned_cols=16  Identities=25%  Similarity=0.376  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        50 nGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           50 SGSGKTTILRLIAGLE   65 (355)
T ss_dssp             TTSSHHHHHHHHHTSS
T ss_pred             CCCcHHHHHHHHhCCC
Confidence            6999999999988653

>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=93.15  E-value=0.036  Score=40.43  Aligned_cols=15  Identities=27%  Similarity=0.262  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|+|||||++.|.+-
T Consensus       135 sGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          135 PNTGKSMLCNSLIHF  149 (305)
T ss_dssp             SSSSHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHhhh
Confidence            699999999998753

>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=93.12  E-value=0.038  Score=37.41  Aligned_cols=14  Identities=29%  Similarity=0.624  Sum_probs=12.8

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +||||||+.+.|.+
T Consensus        10 ~GsGKSTl~~~L~~   23 (204)
T 2if2_A           10 IGCGKSTVAQMFRE   23 (204)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHH
Confidence            69999999999876

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=93.10  E-value=0.024  Score=39.31  Aligned_cols=15  Identities=33%  Similarity=0.581  Sum_probs=8.2

Q ss_pred             CCCchhHHHHHHh-hC
Q 030225            1 MGTGKTSLVLRFV-KG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~-~~   15 (181)
                      +|||||||++.|. +.
T Consensus        36 ~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           36 SGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CC----CHHHHHHC--
T ss_pred             CCCCHHHHHHHHHhcC
Confidence            6999999999998 54

>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=93.08  E-value=0.039  Score=37.51  Aligned_cols=15  Identities=33%  Similarity=0.439  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||++.|.+.
T Consensus        30 ~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           30 TNSGKTTLAKNLQKH   44 (207)
T ss_dssp             TTSSHHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHHh
Confidence            699999999998764

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=93.07  E-value=0.037  Score=36.82  Aligned_cols=14  Identities=29%  Similarity=0.470  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        13 ~GsGKST~~~~La~   26 (186)
T 3cm0_A           13 PGAGKGTQASRLAQ   26 (186)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=93.05  E-value=0.039  Score=37.41  Aligned_cols=14  Identities=29%  Similarity=0.344  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        13 ~GsGKsT~~~~L~~   26 (213)
T 2plr_A           13 DGSGKSSQATLLKD   26 (213)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999865

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=93.03  E-value=0.039  Score=38.70  Aligned_cols=14  Identities=14%  Similarity=0.470  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|||||||++.|.+
T Consensus        34 ~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           34 TASGKSTVCEKIME   47 (245)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            59999999999876

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=93.01  E-value=0.04  Score=37.37  Aligned_cols=14  Identities=29%  Similarity=0.430  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|||||||++.|.+
T Consensus        31 ~GsGKstl~~~l~~   44 (201)
T 1rz3_A           31 SRSGKTTLANQLSQ   44 (201)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999998875

>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=93.00  E-value=0.039  Score=41.23  Aligned_cols=16  Identities=31%  Similarity=0.337  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        38 nGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           38 SGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             TTSSHHHHHHHHHTSS
T ss_pred             CCchHHHHHHHHHCCC
Confidence            6999999999988643

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=93.00  E-value=0.041  Score=36.71  Aligned_cols=14  Identities=36%  Similarity=0.676  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+++.|..
T Consensus        22 ~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           22 PGSGKTTIATRLAD   35 (186)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=92.98  E-value=0.039  Score=41.26  Aligned_cols=16  Identities=25%  Similarity=0.395  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        38 nGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           38 SGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             TTSSHHHHHHHHHTSS
T ss_pred             CCchHHHHHHHHhcCC
Confidence            6999999999988643

>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=92.95  E-value=0.04  Score=41.39  Aligned_cols=16  Identities=25%  Similarity=0.260  Sum_probs=13.7

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        38 nGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           38 SGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             TTSSHHHHHHHHHTSS
T ss_pred             CCcHHHHHHHHHHcCC
Confidence            6999999999988653

>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=92.88  E-value=0.042  Score=37.77  Aligned_cols=14  Identities=29%  Similarity=0.482  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+++.|.+
T Consensus        14 ~GsGKSTl~~~L~~   27 (227)
T 1cke_A           14 SGAGKGTLCKAMAE   27 (227)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998865

>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=92.86  E-value=0.042  Score=41.27  Aligned_cols=15  Identities=27%  Similarity=0.240  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus        46 nGsGKSTLLr~iaGl   60 (372)
T 1v43_A           46 SGCGKTTTLRMIAGL   60 (372)
T ss_dssp             TTSSHHHHHHHHHTS
T ss_pred             CCChHHHHHHHHHcC
Confidence            699999999998864

>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=92.85  E-value=0.26  Score=36.27  Aligned_cols=14  Identities=29%  Similarity=0.555  Sum_probs=12.7

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+|||||++.+.+
T Consensus        45 ~G~GKTtl~~~la~   58 (354)
T 1sxj_E           45 NGTGKKTRCMALLE   58 (354)
T ss_dssp             TTSSHHHHHHTHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999998876

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=92.84  E-value=0.041  Score=39.73  Aligned_cols=14  Identities=43%  Similarity=0.520  Sum_probs=12.7

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||||||||.++|..
T Consensus        42 sGsGKSTla~~L~~   55 (287)
T 1gvn_B           42 PGSGKTSLRSAIFE   55 (287)
T ss_dssp             TTSCTHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999974

>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=92.81  E-value=0.043  Score=41.33  Aligned_cols=16  Identities=25%  Similarity=0.349  Sum_probs=13.7

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        38 sGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           38 SGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             TTSSHHHHHHHHHTSS
T ss_pred             CCchHHHHHHHHHcCC
Confidence            6999999999988644

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=92.80  E-value=0.045  Score=36.53  Aligned_cols=14  Identities=36%  Similarity=0.536  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        12 ~GsGKsT~a~~L~~   25 (196)
T 1tev_A           12 PGAGKGTQCARIVE   25 (196)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>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=92.78  E-value=0.046  Score=37.09  Aligned_cols=14  Identities=36%  Similarity=0.705  Sum_probs=12.7

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|.+
T Consensus        11 ~GsGKST~~~~La~   24 (206)
T 1jjv_A           11 IGSGKTTIANLFTD   24 (206)
T ss_dssp             TTSCHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999976

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=92.76  E-value=0.045  Score=39.23  Aligned_cols=15  Identities=33%  Similarity=0.346  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+.+.
T Consensus        53 ~GtGKTtLakala~~   67 (274)
T 2x8a_A           53 PGCGKTLLAKAVANE   67 (274)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHH
Confidence            799999999999864

>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=92.76  E-value=0.043  Score=36.35  Aligned_cols=14  Identities=36%  Similarity=0.458  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        20 ~GsGKst~~~~l~~   33 (180)
T 3iij_A           20 PGVGKTTLGKELAS   33 (180)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998874

>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=92.75  E-value=0.042  Score=39.78  Aligned_cols=15  Identities=40%  Similarity=0.638  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus        73 NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           73 TGAGKTSLLMMIMGE   87 (290)
T ss_dssp             TTSSHHHHHHHHTTS
T ss_pred             CCCcHHHHHHHHhcC
Confidence            599999999988764

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=92.74  E-value=0.047  Score=36.01  Aligned_cols=14  Identities=43%  Similarity=0.757  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        13 ~GsGKsTla~~La~   26 (175)
T 1via_A           13 MGSGKSTLARALAK   26 (175)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=92.69  E-value=0.32  Score=33.65  Aligned_cols=65  Identities=14%  Similarity=0.040  Sum_probs=46.6

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCC
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL  109 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~  109 (181)
                      .+.+.|+|+|+....  .....+..+|.++++... +..++..+....+.+....  -..+.++.|+.+.
T Consensus       131 ~yD~viiD~pp~~~~--~~~~~l~~aD~viiv~~~-~~~s~~~~~~~~~~~~~~~--~~~~~~v~N~~~~  195 (254)
T 3kjh_A          131 KKEAVVMDMGAGIEH--LTRGTAKAVDMMIAVIEP-NLNSIKTGLNIEKLAGDLG--IKKVRYVINKVRN  195 (254)
T ss_dssp             CCSEEEEEECTTCTT--CCHHHHTTCSEEEEEECS-SHHHHHHHHHHHHHHHHHT--CSCEEEEEEEECC
T ss_pred             CCCEEEEeCCCcccH--HHHHHHHHCCEEEEecCC-CHHHHHHHHHHHHHHHHcC--CccEEEEEeCCCC
Confidence            467889999986432  445667889999999986 4566777776666555543  2457888999873

>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=92.67  E-value=0.046  Score=40.91  Aligned_cols=16  Identities=25%  Similarity=0.302  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        63 nGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           63 SGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             TTSSHHHHHHHHHTSS
T ss_pred             CCchHHHHHHHHhcCC
Confidence            6999999999888643

>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=92.64  E-value=0.046  Score=40.77  Aligned_cols=15  Identities=20%  Similarity=0.421  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+++.
T Consensus       132 tGSGKTTlL~~l~g~  146 (356)
T 3jvv_A          132 TGSGKSTTLAAMLDY  146 (356)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHhc
Confidence            699999999998763

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=92.60  E-value=0.046  Score=37.14  Aligned_cols=25  Identities=12%  Similarity=0.458  Sum_probs=17.3

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          130 SFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       130 ~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ..+.+.+.  ..++++.+.+.+.+.+.
T Consensus       176 ~~~~Id~~--~~~~~~~~~i~~~l~~~  200 (212)
T 2wwf_A          176 YWINIDAT--RKIEDIHNDIVKEVTKI  200 (212)
T ss_dssp             TEEEEECS--SCHHHHHHHHHHHHTTS
T ss_pred             CEEEEECC--CCHHHHHHHHHHHHHHh
Confidence            35555543  56999999998877554

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=92.58  E-value=0.05  Score=36.29  Aligned_cols=14  Identities=29%  Similarity=0.479  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus         9 ~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            9 DGSGKTTQAKKLYE   22 (195)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998865

>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=92.57  E-value=0.046  Score=40.29  Aligned_cols=16  Identities=25%  Similarity=0.393  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+.-
T Consensus       180 ~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          180 TGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             TTSCHHHHHHHGGGGS
T ss_pred             CCCCHHHHHHHHhCCC
Confidence            6999999999988653

>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=92.57  E-value=0.048  Score=39.73  Aligned_cols=15  Identities=13%  Similarity=0.118  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.|.+.
T Consensus        89 ~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           89 VAVGKSTTARVLQAL  103 (308)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999988763

>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=92.56  E-value=0.049  Score=38.27  Aligned_cols=15  Identities=33%  Similarity=0.355  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+.+.
T Consensus        58 ~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           58 PGVGKTHLARAVAGE   72 (254)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999999864

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=92.52  E-value=0.051  Score=37.33  Aligned_cols=15  Identities=47%  Similarity=0.698  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+...
T Consensus        32 ~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           32 PGTGKTIFSLHFIAK   46 (235)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999998853

>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=92.50  E-value=0.036  Score=41.20  Aligned_cols=16  Identities=25%  Similarity=0.243  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        35 nGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           35 TGAGKTLFLELIAGFH   50 (348)
T ss_dssp             CTHHHHHHHHHHHTSS
T ss_pred             CCccHHHHHHHHHcCC
Confidence            6999999999988643

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=92.49  E-value=0.049  Score=36.19  Aligned_cols=14  Identities=50%  Similarity=0.695  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        14 ~GsGKst~a~~La~   27 (185)
T 3trf_A           14 MGAGKTSVGSQLAK   27 (185)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999864

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=92.41  E-value=0.3  Score=34.44  Aligned_cols=91  Identities=18%  Similarity=0.133  Sum_probs=51.7

Q ss_pred             eEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEE-EEEeCCCCc-----cc
Q 030225           39 VTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMF-LVANKVDLE-----EK  112 (181)
Q Consensus        39 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i-vi~nK~D~~-----~~  112 (181)
                      ..+.+.|+|+|+...........+..+|.+|++..... .+...+...++.+...   +.+++ +|.|+.|..     ..
T Consensus       127 ~~yD~ViID~pp~~~~~~~~~~~~~~aD~viiv~~~~~-~s~~~~~~~~~~l~~~---~~~~~gvV~N~~~~~~~~~~~~  202 (262)
T 2ph1_A          127 GELDHLLIDLPPGTGDAPLTVMQDAKPTGVVVVSTPQE-LTAVIVEKAINMAEET---NTSVLGLVENMSYFVCPNCGHK  202 (262)
T ss_dssp             CSCSEEEEECCSSSSSHHHHHHHHHCCSEEEEEECSSS-CCHHHHHHHHHHHHTT---TCCEEEEEETTCCEECTTTCCE
T ss_pred             cCCCEEEEECcCCCchHHHHHHhhccCCeEEEEecCcc-chHHHHHHHHHHHHhC---CCCEEEEEECCCccCCcccccc
Confidence            34678899999864321111112235899999988653 4455666666665443   44555 889998741     11


Q ss_pred             ccC-CHHHHHHHHHHcCCeEEE
Q 030225          113 RKV-KNEEGELYAQENGLSFLE  133 (181)
Q Consensus       113 ~~~-~~~~~~~~~~~~~~~~~~  133 (181)
                      ... .......+.+.++.+++.
T Consensus       203 ~~~~~~~~~~~~~~~~g~~~~~  224 (262)
T 2ph1_A          203 SYIFGEGKGESLAKKYNIGFFT  224 (262)
T ss_dssp             ECTTCCCCHHHHHHHTTCSEEE
T ss_pred             cccccccHHHHHHHHcCCCeEE
Confidence            111 112234555667877654

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=92.40  E-value=0.052  Score=40.55  Aligned_cols=15  Identities=33%  Similarity=0.634  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+.
T Consensus       184 sGsGKSTll~~l~~~  198 (361)
T 2gza_A          184 TGSGKTTLMKALMQE  198 (361)
T ss_dssp             SSSCHHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHhc
Confidence            599999999999864

>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=92.39  E-value=0.046  Score=40.80  Aligned_cols=15  Identities=27%  Similarity=0.350  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.|.+.
T Consensus       179 nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          179 ESSGKSVLVNKLAAV  193 (365)
T ss_dssp             TTSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999998864

>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=92.37  E-value=0.056  Score=35.78  Aligned_cols=14  Identities=29%  Similarity=0.570  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +||||||+++.|..
T Consensus        14 ~GsGKST~~~~L~~   27 (179)
T 2pez_A           14 SGAGKTTVSMALEE   27 (179)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999998875

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=92.34  E-value=0.053  Score=35.36  Aligned_cols=14  Identities=21%  Similarity=0.347  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus         9 ~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            9 MCSGKSTVGSLLSR   22 (168)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998865

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=92.34  E-value=0.052  Score=37.09  Aligned_cols=14  Identities=21%  Similarity=0.418  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus         9 ~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            9 PGAGKGTQAEQIIE   22 (216)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999854

>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=92.29  E-value=0.054  Score=35.47  Aligned_cols=14  Identities=21%  Similarity=0.361  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        11 ~GsGKsT~a~~La~   24 (173)
T 1e6c_A           11 RGCGMTTVGRELAR   24 (173)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=92.28  E-value=0.038  Score=36.58  Aligned_cols=14  Identities=29%  Similarity=0.434  Sum_probs=8.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        14 ~GsGKST~a~~La~   27 (183)
T 2vli_A           14 FGVGKTHTAHTLHE   27 (183)
T ss_dssp             C----CHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999864

>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=92.27  E-value=0.055  Score=39.86  Aligned_cols=15  Identities=33%  Similarity=0.377  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+.+.
T Consensus        60 ~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           60 PGLGKTTLAHIIASE   74 (334)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHH
Confidence            799999999998864

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=92.27  E-value=0.058  Score=35.58  Aligned_cols=15  Identities=33%  Similarity=0.503  Sum_probs=12.9

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        52 ~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           52 PGVGKTAIVEGLAQR   66 (195)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999988753

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=92.26  E-value=0.056  Score=39.73  Aligned_cols=14  Identities=14%  Similarity=0.200  Sum_probs=12.2

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|||||||++.|.+
T Consensus       101 sGSGKSTl~~~L~~  114 (321)
T 3tqc_A          101 VAVGKSTTSRVLKA  114 (321)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999988864

>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=92.25  E-value=0.054  Score=36.53  Aligned_cols=15  Identities=20%  Similarity=0.377  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      |||||||+.+.|...
T Consensus        13 ~GsGKsT~~~~L~~~   27 (204)
T 2v54_A           13 DKSGKTTQCMNIMES   27 (204)
T ss_dssp             TTSSHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998764

>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=92.17  E-value=0.056  Score=36.75  Aligned_cols=14  Identities=21%  Similarity=0.332  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        18 ~GsGKsT~~~~L~~   31 (215)
T 1nn5_A           18 DRAGKSTQSRKLVE   31 (215)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998874

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=92.17  E-value=0.061  Score=35.98  Aligned_cols=14  Identities=29%  Similarity=0.479  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        18 ~GsGKsT~~~~La~   31 (196)
T 2c95_A           18 PGSGKGTQCEKIVQ   31 (196)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>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=92.17  E-value=0.058  Score=38.87  Aligned_cols=15  Identities=27%  Similarity=0.368  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||+..+.+.
T Consensus        44 ~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           44 SGMGKSTFVRQQALQ   58 (296)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999988764

>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=92.16  E-value=0.055  Score=38.35  Aligned_cols=27  Identities=19%  Similarity=0.326  Sum_probs=17.9

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          130 SFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       130 ~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+.+.+.....++++.+.|.+.+...
T Consensus       148 ~~~~Id~~~~~~~~ei~~~I~~~l~~~  174 (260)
T 3a4m_A          148 PFLIIDTTKDIDFNEIAKKLIEKSKEI  174 (260)
T ss_dssp             CSEEEETTSCCCHHHHHHHHHHHHTSC
T ss_pred             CEEEEeCCCCCCHHHHHHHHHhcccCC
Confidence            345565544456899999888876543

>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=92.13  E-value=0.058  Score=40.74  Aligned_cols=15  Identities=33%  Similarity=0.678  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus        56 sGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           56 TGSGKSTLLSAFLRL   70 (390)
T ss_dssp             TTSSHHHHHHHHHTC
T ss_pred             CCChHHHHHHHHhCC
Confidence            699999999998863

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=92.12  E-value=0.057  Score=37.30  Aligned_cols=26  Identities=15%  Similarity=0.144  Sum_probs=19.5

Q ss_pred             EEEEecCCCCCHHHHHHHHHHHHHhhCCC
Q 030225          131 FLETSAKSAHNVNELFYEIAKRLAEVNPS  159 (181)
Q Consensus       131 ~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~  159 (181)
                      ++.+.+.   .++++++.|.+.+...-+.
T Consensus       193 ~~~id~~---~~~~v~~~i~~~l~~~~~~  218 (227)
T 1zd8_A          193 LETFSGT---ETNKIWPYVYAFLQTKVPQ  218 (227)
T ss_dssp             EEEEECS---SHHHHHHHHHHHHTTTSCC
T ss_pred             EEEEeCC---CHHHHHHHHHHHHHhhcCC
Confidence            6677764   7999999999988665443

>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=92.11  E-value=0.057  Score=36.89  Aligned_cols=14  Identities=36%  Similarity=0.420  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus         9 ~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            9 PGAGKGTQGERIVE   22 (216)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999864

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=92.06  E-value=0.063  Score=35.98  Aligned_cols=14  Identities=29%  Similarity=0.496  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        21 ~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           21 PGSGKGTQCEKLVE   34 (199)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999988865

>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=92.03  E-value=0.06  Score=36.37  Aligned_cols=14  Identities=21%  Similarity=0.508  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        29 ~GsGKST~a~~La~   42 (201)
T 2cdn_A           29 PGAGKGTQAVKLAE   42 (201)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>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=91.99  E-value=0.063  Score=39.12  Aligned_cols=84  Identities=11%  Similarity=0.011  Sum_probs=45.6

Q ss_pred             EEEEEeCCChhhhh------------ccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCC
Q 030225           42 KFDIWDTAGQERYH------------SLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL  109 (181)
Q Consensus        42 ~~~i~D~~G~~~~~------------~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~  109 (181)
                      .+.+.|++|.....            .+.+......+.++++.|+......   ...+..+....  + ..++++||.|.
T Consensus       186 d~~llDt~G~~~~~~~~~~eLs~~r~~iaRal~~~P~~~lLvLDa~t~~~~---~~~~~~~~~~~--~-~t~iivTh~d~  259 (304)
T 1rj9_A          186 DLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNG---LEQAKKFHEAV--G-LTGVIVTKLDG  259 (304)
T ss_dssp             SEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHH---HHHHHHHHHHH--C-CSEEEEECTTS
T ss_pred             CEEEecCCCCCCchHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcHHHHHHH---HHHHHHHHHHc--C-CcEEEEECCcc
Confidence            35688999853211            1112334567888889998754332   22233332221  1 35677899885


Q ss_pred             cccccCCHHHHHHHHHHcCCeEEEEe
Q 030225          110 EEKRKVKNEEGELYAQENGLSFLETS  135 (181)
Q Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~S  135 (181)
                      .. ..   -.+.......+.|+.++.
T Consensus       260 ~a-~g---g~~l~i~~~~~~pi~~ig  281 (304)
T 1rj9_A          260 TA-KG---GVLIPIVRTLKVPIKFVG  281 (304)
T ss_dssp             SC-CC---TTHHHHHHHHCCCEEEEE
T ss_pred             cc-cc---cHHHHHHHHHCCCeEEEe
Confidence            32 11   123445556788877664

>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=91.96  E-value=0.065  Score=36.50  Aligned_cols=14  Identities=36%  Similarity=0.420  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+|||||+..+..
T Consensus        29 ~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           29 YASGKTTLALQTGL   42 (220)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999987

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=91.94  E-value=0.063  Score=42.05  Aligned_cols=16  Identities=19%  Similarity=0.131  Sum_probs=13.7

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+++.-
T Consensus       269 tGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          269 TASGKTTTLNAIMMFI  284 (511)
T ss_dssp             TTSSHHHHHHHHGGGS
T ss_pred             CCCCHHHHHHHHHhhC
Confidence            6999999999998644

>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=91.94  E-value=0.062  Score=35.83  Aligned_cols=15  Identities=40%  Similarity=0.434  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      |||||||+.+.|...
T Consensus        19 ~GsGKSTv~~~La~~   33 (184)
T 1y63_A           19 PGTGKTSMAEMIAAE   33 (184)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHh
Confidence            799999999988764

>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=91.92  E-value=0.063  Score=40.27  Aligned_cols=14  Identities=21%  Similarity=0.617  Sum_probs=12.7

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|||||||++.+.+
T Consensus       145 ~GsGKTTll~~l~~  158 (372)
T 2ewv_A          145 TGSGKSTTIASMID  158 (372)
T ss_dssp             SSSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHh
Confidence            69999999999886

>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=91.92  E-value=0.047  Score=37.90  Aligned_cols=15  Identities=40%  Similarity=0.625  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.|.+.
T Consensus        29 ~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           29 IGSGKTTYLNHFEKY   43 (230)
T ss_dssp             TTSCHHHHHHTTGGG
T ss_pred             CCCCHHHHHHHHHhc
Confidence            589999999988765

>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=91.91  E-value=0.068  Score=35.57  Aligned_cols=14  Identities=29%  Similarity=0.489  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        15 ~GsGKsT~~~~L~~   28 (194)
T 1qf9_A           15 PGSGKGTQCANIVR   28 (194)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>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=91.91  E-value=0.037  Score=41.26  Aligned_cols=16  Identities=25%  Similarity=0.316  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        40 nGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           40 SGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             CHHHHHHHHHHHHTSS
T ss_pred             CCCcHHHHHHHHhCCC
Confidence            6899999999988653

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=91.89  E-value=0.56  Score=33.03  Aligned_cols=64  Identities=9%  Similarity=0.026  Sum_probs=45.5

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCC
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVD  108 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D  108 (181)
                      +.+.|+|+|+...  ......+..+|.+|++...+ ..+...+...++.+.... .+.++.+|+|+.+
T Consensus       145 yD~viiD~pp~~~--~~~~~~l~~aD~vivv~~~~-~~s~~~~~~~~~~l~~~~-~~~~~~vv~N~~~  208 (267)
T 3k9g_A          145 YDYIVIDTNPSLD--VTLKNALLCSDYVIIPMTAE-KWAVESLDLFNFFVRKLN-LFLPIFLIITRFK  208 (267)
T ss_dssp             CSEEEEEECSSCS--HHHHHHHTTCSEEEEEEESC-TTHHHHHHHHHHHHHTTT-CCCCEEEEEEEEC
T ss_pred             CCEEEEECcCCcc--HHHHHHHHHCCeEEEEeCCC-hHHHHHHHHHHHHHHHHh-ccCCEEEEEeccc
Confidence            5688999998542  23345667799999999974 566676777767665553 4567788999984

>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=91.88  E-value=0.066  Score=38.73  Aligned_cols=14  Identities=21%  Similarity=0.437  Sum_probs=12.0

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|||||||++.|..
T Consensus        40 sGsGKSTla~~L~~   53 (290)
T 1odf_A           40 QGSGKSFTSIQIYN   53 (290)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999988764

>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=91.80  E-value=0.071  Score=35.30  Aligned_cols=14  Identities=21%  Similarity=0.299  Sum_probs=12.1

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|+|||||++++..
T Consensus        35 NGsGKStll~ai~~   48 (182)
T 3kta_A           35 NGSGKSNIGDAILF   48 (182)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            58999999999864

>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=91.75  E-value=0.072  Score=36.42  Aligned_cols=14  Identities=14%  Similarity=0.064  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus         9 ~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            9 PVAGKGTQAQFIME   22 (214)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>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=91.74  E-value=0.046  Score=39.87  Aligned_cols=15  Identities=20%  Similarity=0.410  Sum_probs=12.6

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus        89 sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           89 SGAGKSTILRLLFRF  103 (306)
T ss_dssp             SCHHHHHHHHHHTTS
T ss_pred             CCchHHHHHHHHHcC
Confidence            699999999888753

>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=91.73  E-value=0.068  Score=35.47  Aligned_cols=14  Identities=36%  Similarity=0.615  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        11 ~GsGKsT~a~~La~   24 (184)
T 2iyv_A           11 PGSGKSTIGRRLAK   24 (184)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999988864

>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=91.72  E-value=0.24  Score=38.15  Aligned_cols=16  Identities=19%  Similarity=0.212  Sum_probs=13.1

Q ss_pred             CCeEEEEEEEeCCChh
Q 030225           37 NEVTIKFDIWDTAGQE   52 (181)
Q Consensus        37 ~~~~~~~~i~D~~G~~   52 (181)
                      ++....+.++||.|..
T Consensus       136 ~g~~~~vlllDTEG~~  151 (457)
T 4ido_A          136 DGKKVAVLLMDTQGTF  151 (457)
T ss_dssp             TSCEEEEEEEEECCBT
T ss_pred             CCCeeEEEEEeccCCC
Confidence            5667889999999954

>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=91.71  E-value=0.072  Score=36.54  Aligned_cols=14  Identities=21%  Similarity=0.316  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        13 ~GsGKsT~a~~La~   26 (220)
T 1aky_A           13 PGAGKGTQAPNLQE   26 (220)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=91.68  E-value=0.072  Score=37.62  Aligned_cols=14  Identities=21%  Similarity=0.513  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||||||||.+.|..
T Consensus        10 ~GSGKSTla~~La~   23 (253)
T 2ze6_A           10 TCSGKTDMAIQIAQ   23 (253)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHh
Confidence            79999999999864

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=91.66  E-value=0.052  Score=38.27  Aligned_cols=14  Identities=36%  Similarity=0.340  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        41 ~GsGKSTla~~L~~   54 (253)
T 2p5t_B           41 SGAGKTTIHRIKQK   54 (253)
T ss_dssp             GGGTTHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999865

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=91.66  E-value=0.072  Score=38.03  Aligned_cols=16  Identities=31%  Similarity=0.328  Sum_probs=13.7

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+|||||++.+.+..
T Consensus        82 ~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           82 PGVGKTHLARAVAGEA   97 (278)
T ss_dssp             TTSSHHHHHHHHHHHT
T ss_pred             CcChHHHHHHHHHHHc
Confidence            7999999999988643

>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=91.60  E-value=0.075  Score=36.82  Aligned_cols=15  Identities=27%  Similarity=0.348  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||+..+...
T Consensus        33 ~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           33 FRTGKTQICHTLAVT   47 (243)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHH
Confidence            799999999999874

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=91.59  E-value=0.074  Score=38.70  Aligned_cols=14  Identities=29%  Similarity=0.425  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|||||||++.|.+
T Consensus       109 nGsGKTTll~~Lag  122 (302)
T 3b9q_A          109 NGGGKTTSLGKLAH  122 (302)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            59999999999875

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=91.58  E-value=0.073  Score=34.78  Aligned_cols=14  Identities=43%  Similarity=0.605  Sum_probs=12.2

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        16 ~GsGKSTva~~La~   29 (168)
T 1zuh_A           16 MGSGKSSLAQELGL   29 (168)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>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=91.58  E-value=0.076  Score=36.92  Aligned_cols=25  Identities=8%  Similarity=0.193  Sum_probs=17.9

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          130 SFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       130 ~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      .++.+.+  ...++++++.+.+.+.+.
T Consensus       201 ~~~vIDa--~~s~eev~~~I~~~l~~~  225 (229)
T 4eaq_A          201 RFKSVNA--DQPLENVVEDTYQTIIKY  225 (229)
T ss_dssp             TEEEEET--TSCHHHHHHHHHHHHHHH
T ss_pred             CEEEEeC--CCCHHHHHHHHHHHHHHH
Confidence            3666665  357899999988877654

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=91.57  E-value=0.077  Score=35.81  Aligned_cols=14  Identities=36%  Similarity=0.522  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        24 ~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           24 PGAGKGTQCEKLVK   37 (203)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998874

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=91.51  E-value=0.7  Score=32.40  Aligned_cols=67  Identities=15%  Similarity=0.091  Sum_probs=42.5

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHH---HHhCCCCceEE-EEEeCCCC
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQEL---QRQGNPNLIMF-LVANKVDL  109 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~---~~~~~~~~p~i-vi~nK~D~  109 (181)
                      .+.+.|+|+|+.....  ....+..+|.+|++...+. .++..+...++.+   .....++.+++ +|.|+.|.
T Consensus       111 ~yD~iiiD~pp~~~~~--~~~~l~~aD~viiv~~~~~-~s~~~~~~~~~~l~~~~~~~~~~~~~~gvv~N~~~~  181 (257)
T 1wcv_1          111 GYDLVLLDAPPSLSPL--TLNALAAAEGVVVPVQAEY-YALEGVAGLLATLEEVRAGLNPRLRLLGILVTMYDG  181 (257)
T ss_dssp             TCSEEEEECCSSCCHH--HHHHHHHCSEEEEEEESST-HHHHHHHHHHHHHHHHHHHTCTTCEEEEEEEESBCT
T ss_pred             CCCEEEEeCCCCCCHH--HHHHHHHCCeEEEEecCch-HHHHHHHHHHHHHHHHHHHhCCCceEEEEEEEeECC
Confidence            3568899999864322  2344567999999999753 4555444444444   33223566664 88999875

>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=91.51  E-value=0.074  Score=40.56  Aligned_cols=15  Identities=20%  Similarity=0.390  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+++.
T Consensus       176 nGSGKTTlL~allg~  190 (418)
T 1p9r_A          176 TGSGKSTTLYAGLQE  190 (418)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHhh
Confidence            599999999999864

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=91.49  E-value=0.079  Score=36.41  Aligned_cols=25  Identities=16%  Similarity=0.351  Sum_probs=18.2

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          130 SFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       130 ~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      .++.+.+  ...++++++.|.+.+...
T Consensus       187 ~~~~Id~--~~~~~ev~~~I~~~l~~~  211 (222)
T 1zak_A          187 IIVKVQG--DATVDAVFAKIDELLGSI  211 (222)
T ss_dssp             CEEEEEC--SSCHHHHHHHHHHHHHHH
T ss_pred             cEEEEEC--CCCHHHHHHHHHHHHHhh
Confidence            4667776  356899999988877553

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=91.48  E-value=0.079  Score=36.55  Aligned_cols=14  Identities=21%  Similarity=0.119  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus         9 ~GsGKsT~a~~La~   22 (223)
T 2xb4_A            9 NGSGKGTQGNLVKD   22 (223)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>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=91.38  E-value=0.083  Score=36.04  Aligned_cols=16  Identities=19%  Similarity=0.173  Sum_probs=13.1

Q ss_pred             CHHHHHHHHHHHHHhh
Q 030225          141 NVNELFYEIAKRLAEV  156 (181)
Q Consensus       141 gi~~~~~~l~~~~~~~  156 (181)
                      .++++.+.|...+...
T Consensus       188 s~eev~~~I~~~l~~~  203 (211)
T 1m7g_A          188 PVQDAVKQIIDYLDTK  203 (211)
T ss_dssp             CHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHc
Confidence            6999999998887653

>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=91.16  E-value=0.083  Score=36.14  Aligned_cols=14  Identities=29%  Similarity=0.698  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +||||||+.+.|..
T Consensus        13 ~GSGKST~~~~L~~   26 (218)
T 1vht_A           13 IGSGKSTVANAFAD   26 (218)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999875

>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=91.06  E-value=0.091  Score=36.81  Aligned_cols=14  Identities=36%  Similarity=0.503  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.++|..
T Consensus        38 ~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           38 PGSGKGTQSLNLKK   51 (243)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999864

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=91.01  E-value=0.42  Score=34.91  Aligned_cols=15  Identities=33%  Similarity=0.317  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        64 ~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           64 AGLGKTTLANIISYE   78 (338)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998654

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=90.90  E-value=0.071  Score=37.12  Aligned_cols=16  Identities=31%  Similarity=0.536  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        36 nGsGKSTll~~i~g~~   51 (227)
T 1qhl_A           36 NGAGKSTTMAAFVTAL   51 (227)
T ss_dssp             CSHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhccc
Confidence            5999999999987643

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=90.87  E-value=3  Score=29.16  Aligned_cols=87  Identities=16%  Similarity=0.195  Sum_probs=51.7

Q ss_pred             EEEEEEeCCChhhhhccc-hhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCC-CCce-EEEEEeCCCCcccccCCH
Q 030225           41 IKFDIWDTAGQERYHSLA-PMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGN-PNLI-MFLVANKVDLEEKRKVKN  117 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p-~ivi~nK~D~~~~~~~~~  117 (181)
                      +.+.|+|+||......+. ......+|.+|++... +..++..+...++.+..... .+.+ ..+|.|+.+..    ...
T Consensus       116 yD~iiiD~~~~~~~~~~~~~~~~~~aD~viiv~~~-~~~s~~~~~~~~~~l~~~~~~~~~~~~gvv~N~~~~~----~~~  190 (269)
T 1cp2_A          116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASG-EMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVA----NEY  190 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECS-SHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSSS----CCH
T ss_pred             CCEEEEeCCchhhhhhhhhhhhHhhCCEEEEeecC-chhhHHHHHHHHHHHHHHHhcCCCcEEEEEeecCCcc----hhH
Confidence            568899999853222111 1122468999999886 45667777666666655322 2445 46778998632    123


Q ss_pred             HHHHHHHHHcCCeEE
Q 030225          118 EEGELYAQENGLSFL  132 (181)
Q Consensus       118 ~~~~~~~~~~~~~~~  132 (181)
                      +....+.+.++.+++
T Consensus       191 ~~~~~l~~~~~~~v~  205 (269)
T 1cp2_A          191 ELLDAFAKELGSQLI  205 (269)
T ss_dssp             HHHHHHHHHHTCCEE
T ss_pred             HHHHHHHHHcCCccc
Confidence            444555566676654

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=90.87  E-value=0.1  Score=35.21  Aligned_cols=15  Identities=33%  Similarity=0.527  Sum_probs=12.9

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        63 ~GtGKT~la~~i~~~   77 (202)
T 2w58_A           63 FGVGKTYLLAAIANE   77 (202)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999988753

>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=90.85  E-value=0.096  Score=37.72  Aligned_cols=14  Identities=29%  Similarity=0.615  Sum_probs=12.8

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.++|..
T Consensus        11 ~GsGKST~a~~L~~   24 (301)
T 1ltq_A           11 PGSGKSTWAREFIA   24 (301)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999875

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=90.84  E-value=0.076  Score=34.91  Aligned_cols=15  Identities=33%  Similarity=0.421  Sum_probs=12.7

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        52 ~G~GKT~la~~~~~~   66 (187)
T 2p65_A           52 PGVGKTAIVEGLAIK   66 (187)
T ss_dssp             GGGCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            699999999988653

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=90.84  E-value=0.1  Score=35.81  Aligned_cols=14  Identities=29%  Similarity=0.259  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        14 ~GsGKsT~a~~La~   27 (217)
T 3be4_A           14 PGSGKGTQCEFIKK   27 (217)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=90.82  E-value=0.092  Score=37.00  Aligned_cols=19  Identities=0%  Similarity=0.057  Sum_probs=15.3

Q ss_pred             CCCHHHHHHHHHHHHHhhC
Q 030225          139 AHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       139 ~~gi~~~~~~l~~~~~~~~  157 (181)
                      +.+++++.+.|...+.+..
T Consensus       228 ~~~~eev~~~I~~~i~~~~  246 (252)
T 4e22_A          228 SMSIEQVIEQALAYAQRIL  246 (252)
T ss_dssp             SSCHHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHHHh
Confidence            4579999999998887764

>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=90.82  E-value=0.1  Score=35.95  Aligned_cols=15  Identities=20%  Similarity=0.324  Sum_probs=12.9

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        61 ~G~GKT~la~~l~~~   75 (242)
T 3bos_A           61 VKSGRTHLIHAACAR   75 (242)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999988753

>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=90.65  E-value=0.11  Score=34.94  Aligned_cols=15  Identities=20%  Similarity=0.401  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +||||||+.+.|...
T Consensus        17 ~GsGKST~~~~La~~   31 (203)
T 1uf9_A           17 IGSGKSTVAALLRSW   31 (203)
T ss_dssp             TTSCHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHC
Confidence            699999999998865

>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=90.61  E-value=1.1  Score=32.42  Aligned_cols=15  Identities=33%  Similarity=0.499  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||++++.+...
T Consensus        57 ~G~GKT~la~~la~~   71 (324)
T 3u61_B           57 PGTGKTTVAKALCHD   71 (324)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998754

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=90.58  E-value=0.11  Score=36.57  Aligned_cols=15  Identities=40%  Similarity=0.390  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+.+.
T Consensus        54 ~GtGKT~la~~la~~   68 (257)
T 1lv7_A           54 PGTGKTLLAKAIAGE   68 (257)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998753

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=90.53  E-value=0.1  Score=40.28  Aligned_cols=15  Identities=40%  Similarity=0.297  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.|.+-
T Consensus       147 nGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          147 SQTGKTSLSRTLCSY  161 (460)
T ss_dssp             TTSSHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHhCc
Confidence            589999999998864

>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=90.52  E-value=0.1  Score=40.61  Aligned_cols=90  Identities=16%  Similarity=0.104  Sum_probs=46.7

Q ss_pred             EEEEEEeCCChhhhhc--c--c-------hhh-ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCC
Q 030225           41 IKFDIWDTAGQERYHS--L--A-------PMY-YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVD  108 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~--~--~-------~~~-~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D  108 (181)
                      +.+.++||+|......  +  .       ..+ ....+-+++|.|++-...   .......+....  + ...+|+||.|
T Consensus       376 ~DvVLIDTaGrl~~~~~lm~EL~kiv~iar~l~~~~P~evLLvLDattGq~---al~~ak~f~~~~--~-itgvIlTKLD  449 (503)
T 2yhs_A          376 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQN---AVSQAKLFHEAV--G-LTGITLTKLD  449 (503)
T ss_dssp             CSEEEECCCCSCCCHHHHHHHHHHHHHHHHTTCTTCSSEEEEEEEGGGTHH---HHHHHHHHHHHT--C-CSEEEEECGG
T ss_pred             CCEEEEeCCCccchhhhHHHHHHHHHHHHHHhccCCCCeeEEEecCcccHH---HHHHHHHHHhhc--C-CCEEEEEcCC
Confidence            3577999999632111  0  0       011 123567888999775422   112223333221  2 3456789988


Q ss_pred             CcccccCCHHHHHHHHHHcCCeEEEEecCCCCCH
Q 030225          109 LEEKRKVKNEEGELYAQENGLSFLETSAKSAHNV  142 (181)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  142 (181)
                      -..    ..-.+..++...++++.++.  +|+++
T Consensus       450 ~ta----kgG~~lsi~~~~~~PI~fig--~Ge~v  477 (503)
T 2yhs_A          450 GTA----KGGVIFSVADQFGIPIRYIG--VGERI  477 (503)
T ss_dssp             GCS----CCTHHHHHHHHHCCCEEEEE--CSSSG
T ss_pred             Ccc----cccHHHHHHHHHCCCEEEEe--cCCCh
Confidence            421    12234566667788877753  44444

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=90.44  E-value=0.58  Score=34.89  Aligned_cols=13  Identities=38%  Similarity=0.493  Sum_probs=11.7

Q ss_pred             CCCchhHHHHHHh
Q 030225            1 MGTGKTSLVLRFV   13 (181)
Q Consensus         1 ~~~GKttLl~~l~   13 (181)
                      .|||||||++.+.
T Consensus        32 NGaGKTTll~ai~   44 (365)
T 3qf7_A           32 NGAGKSSLFEAIS   44 (365)
T ss_dssp             TTSSHHHHHHHHH
T ss_pred             CCCCHHHHHHHHH
Confidence            5899999999986

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=90.44  E-value=0.11  Score=38.61  Aligned_cols=16  Identities=31%  Similarity=0.540  Sum_probs=14.1

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|+|||||++.+.+..
T Consensus        80 nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           80 SGVGKSTLLGMICNGA   95 (347)
T ss_dssp             TTSSHHHHHHHHHHHS
T ss_pred             CCCCHHHHHHHHhcCC
Confidence            6999999999998764

>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=90.33  E-value=0.12  Score=35.42  Aligned_cols=14  Identities=43%  Similarity=0.553  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+|||||++.+..
T Consensus        54 ~G~GKT~l~~~~~~   67 (250)
T 1njg_A           54 RGVGKTSIARLLAK   67 (250)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998865

>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=90.26  E-value=0.12  Score=35.84  Aligned_cols=24  Identities=13%  Similarity=0.188  Sum_probs=17.5

Q ss_pred             EEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          131 FLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       131 ~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ++.+.+.  ..++++++.|.+.+...
T Consensus       208 ~~~id~~--~~~~~v~~~I~~~l~~~  231 (233)
T 1ak2_A          208 HSAIDAS--QTPDVVFASILAAFSKA  231 (233)
T ss_dssp             EEEEETT--SCHHHHHHHHHHHHHHH
T ss_pred             EEEEECC--CCHHHHHHHHHHHHHhh
Confidence            5667664  56899999988877543

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=90.24  E-value=0.12  Score=38.65  Aligned_cols=14  Identities=29%  Similarity=0.425  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|||||||++.|.+
T Consensus       166 nGsGKTTll~~Lag  179 (359)
T 2og2_A          166 NGGGKTTSLGKLAH  179 (359)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHh
Confidence            59999999999875

>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=90.19  E-value=0.12  Score=36.90  Aligned_cols=14  Identities=36%  Similarity=0.593  Sum_probs=12.6

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+|||||+..+..
T Consensus        39 ~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           39 GGAGKSMLALQLAA   52 (279)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999875

>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=90.05  E-value=0.12  Score=38.80  Aligned_cols=14  Identities=29%  Similarity=0.600  Sum_probs=12.8

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+|||||++.+.+
T Consensus       178 ~GsGKSTl~~~l~~  191 (377)
T 1svm_A          178 IDSGKTTLAAALLE  191 (377)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHh
Confidence            79999999999885

>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=89.68  E-value=0.15  Score=32.89  Aligned_cols=13  Identities=38%  Similarity=0.601  Sum_probs=11.5

Q ss_pred             CCCchhHHHHHHh
Q 030225            1 MGTGKTSLVLRFV   13 (181)
Q Consensus         1 ~~~GKttLl~~l~   13 (181)
                      .|+|||||+.++.
T Consensus        32 NGsGKStil~Ai~   44 (149)
T 1f2t_A           32 NGSGKSSLLDAIL   44 (149)
T ss_dssp             TTSSHHHHHHHHH
T ss_pred             CCCCHHHHHHHHH
Confidence            4899999999975

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=89.66  E-value=0.14  Score=36.13  Aligned_cols=20  Identities=15%  Similarity=0.069  Sum_probs=14.7

Q ss_pred             CCCCCHHHHHHHHHHHHHhh
Q 030225          137 KSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       137 ~~~~gi~~~~~~l~~~~~~~  156 (181)
                      .++..++++++.+.+.+...
T Consensus       218 Ts~~s~eev~~~I~~~i~~~  237 (250)
T 3nwj_A          218 VSDLTPAEIAIEAFEQVQSY  237 (250)
T ss_dssp             GGGCCHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHH
Confidence            34567888888888877664

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae}

Probab=89.66  E-value=1  Score=33.45  Aligned_cols=46  Identities=13%  Similarity=0.069  Sum_probs=30.7

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHH
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQ   88 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~   88 (181)
                      .+.+.|+|+|...  .......+..+|.+|++... +..++..+...++
T Consensus       153 ~yD~VIID~pP~l--~~~~~~aL~~aD~viip~~~-~~~s~~~~~~l~~  198 (361)
T 3pg5_A          153 RYDVIFFDVGPSL--GPFNRTVLLGCDAFVTPTAT-DLFSFHAFGNLAR  198 (361)
T ss_dssp             CCSEEEEECCSCC--SHHHHHHHTTCSEEEEEECC-SHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCc--CHHHHHHHHHCCEEEEEecC-ChHHHHHHHHHHH
Confidence            5778999999753  23345566779999999986 4555544443333

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=89.52  E-value=0.14  Score=39.29  Aligned_cols=16  Identities=25%  Similarity=0.327  Sum_probs=13.9

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|+|||||++.+.+..
T Consensus       166 sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          166 SGVGKSVLLGMMARYT  181 (438)
T ss_dssp             TTSSHHHHHHHHHHHS
T ss_pred             CCCCHHHHHHHHhccc
Confidence            6999999999998764

>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=89.51  E-value=0.15  Score=34.35  Aligned_cols=14  Identities=29%  Similarity=0.437  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        11 ~GsGKst~~~~la~   24 (208)
T 3ake_A           11 SASGKSSVARRVAA   24 (208)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999998865

>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=89.48  E-value=0.15  Score=37.25  Aligned_cols=15  Identities=40%  Similarity=0.463  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+.+.
T Consensus        46 ~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           46 VGTGKTHLLQAAGNE   60 (324)
T ss_dssp             SSSSHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHH
Confidence            799999999988753

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=89.43  E-value=0.15  Score=36.34  Aligned_cols=15  Identities=40%  Similarity=0.397  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        60 ~GtGKT~la~~la~~   74 (285)
T 3h4m_A           60 PGTGKTLLAKAVATE   74 (285)
T ss_dssp             SSSSHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHH
Confidence            799999999998754

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=89.39  E-value=0.15  Score=35.30  Aligned_cols=14  Identities=43%  Similarity=0.558  Sum_probs=11.9

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+|||||+..+..
T Consensus        32 ~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           32 PGTGKTIFSQQFLW   45 (247)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999887764

>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=89.37  E-value=0.15  Score=39.68  Aligned_cols=14  Identities=36%  Similarity=0.629  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|||||||++.+.+
T Consensus        38 nGsGKSTLl~~l~G   51 (483)
T 3euj_A           38 NGAGKSTTMAGFVT   51 (483)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHhc
Confidence            58999999999875

>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=89.33  E-value=0.15  Score=34.45  Aligned_cols=15  Identities=27%  Similarity=0.468  Sum_probs=12.8

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +||||||+.+.|...
T Consensus        21 ~GSGKSTva~~L~~~   35 (192)
T 2grj_A           21 IGTGKSTVCEILKNK   35 (192)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHh
Confidence            699999999988754

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=89.26  E-value=0.16  Score=35.38  Aligned_cols=14  Identities=29%  Similarity=0.527  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +||||||+++.|..
T Consensus        11 ~g~GKtt~~~~l~~   24 (241)
T 2ocp_A           11 IAVGKSTFVKLLTK   24 (241)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999998875

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=89.16  E-value=0.15  Score=40.16  Aligned_cols=15  Identities=33%  Similarity=0.388  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+.
T Consensus        56 NGaGKSTLlk~l~Gl   70 (538)
T 1yqt_A           56 NGTGKSTAVKILAGQ   70 (538)
T ss_dssp             TTSSHHHHHHHHHTS
T ss_pred             CCCCHHHHHHHHhCC
Confidence            599999999998874

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=89.10  E-value=0.16  Score=36.41  Aligned_cols=15  Identities=33%  Similarity=0.350  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        63 ~GtGKT~la~~la~~   77 (297)
T 3b9p_A           63 PGNGKTLLARAVATE   77 (297)
T ss_dssp             SSSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998764

>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=89.04  E-value=0.16  Score=37.66  Aligned_cols=16  Identities=31%  Similarity=0.409  Sum_probs=13.8

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+|||||+..+....
T Consensus       140 ~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          140 FGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             TTSSHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            7999999999998653

>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=88.96  E-value=0.16  Score=35.68  Aligned_cols=14  Identities=29%  Similarity=0.574  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        31 ~GSGKST~a~~L~~   44 (252)
T 1uj2_A           31 TASGKSSVCAKIVQ   44 (252)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998865

>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=88.83  E-value=0.17  Score=37.44  Aligned_cols=15  Identities=40%  Similarity=0.505  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+...
T Consensus        54 ~G~GKTtl~~~l~~~   68 (386)
T 2qby_A           54 TGTGKTAVVKFVLSK   68 (386)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998763

>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=88.82  E-value=0.17  Score=38.58  Aligned_cols=15  Identities=20%  Similarity=0.487  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||.++|...
T Consensus       267 pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          267 PGAGKSTFIQEHLVS  281 (416)
T ss_dssp             TTSSHHHHHHHHTGG
T ss_pred             CCCCHHHHHHHHHHh
Confidence            799999999998753

>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=88.71  E-value=0.17  Score=36.32  Aligned_cols=14  Identities=36%  Similarity=0.627  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        84 ~GSGKSTva~~La~   97 (281)
T 2f6r_A           84 SGSGKSSVAQRLKN   97 (281)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998863

>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=88.68  E-value=0.18  Score=35.28  Aligned_cols=15  Identities=33%  Similarity=0.330  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        48 ~GtGKT~la~~la~~   62 (262)
T 2qz4_A           48 PGCGKTLLAKAVATE   62 (262)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998753

>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=88.64  E-value=0.18  Score=35.55  Aligned_cols=15  Identities=40%  Similarity=0.370  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        53 ~GtGKT~la~~la~~   67 (268)
T 2r62_A           53 PGTGKTLLAKAVAGE   67 (268)
T ss_dssp             SCSSHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHH
Confidence            799999999998763

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=88.60  E-value=0.19  Score=36.31  Aligned_cols=15  Identities=20%  Similarity=0.200  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        45 pGtGKT~la~aiA~~   59 (293)
T 3t15_A           45 KGQGKSFQCELVFRK   59 (293)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            899999999998754

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=88.53  E-value=0.63  Score=33.35  Aligned_cols=67  Identities=19%  Similarity=0.157  Sum_probs=40.8

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHH---HHhCCCCce-EEEEEeCCCCc
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQEL---QRQGNPNLI-MFLVANKVDLE  110 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~---~~~~~~~~p-~ivi~nK~D~~  110 (181)
                      +.+.|+|+|+......  ...+..+|.+|++...+ ..+...+...+..+   .....++.+ .-+|.|+.|..
T Consensus       155 yD~IiiD~pp~~~~~~--~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~l~~~~~~~~~~~~~~gvv~n~~~~~  225 (298)
T 2oze_A          155 YDLIIIDTVPTPSVYT--NNAIVASDYVMIPLQAE-EESTNNIQNYISYLIDLQEQFNPGLDMIGFVPYLVDTD  225 (298)
T ss_dssp             CSEEEEEECSSCSHHH--HHHHHHCSEEEEEECGG-GCCHHHHHHHHHHHHHHHHHHCTTCEEEEEEEEESCTT
T ss_pred             CCEEEEECCCCccHHH--HHHHHHCCeEEEEecCc-HHHHHHHHHHHHHHHHHHHHhCCCCeEEEEEEEEECCC
Confidence            5688999998643222  23344699999998864 34444444444443   332234566 44788999863

>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=88.47  E-value=0.18  Score=35.19  Aligned_cols=14  Identities=36%  Similarity=0.579  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        18 ~GsGKsTla~~la~   31 (233)
T 3r20_A           18 AGTGKSSVSRGLAR   31 (233)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998863

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=88.37  E-value=0.19  Score=40.31  Aligned_cols=15  Identities=20%  Similarity=0.282  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|+|||||++.+.+.
T Consensus       112 NGaGKSTLLkiL~Gl  126 (608)
T 3j16_B          112 NGIGKSTALKILAGK  126 (608)
T ss_dssp             TTSSHHHHHHHHHTS
T ss_pred             CCChHHHHHHHHhcC
Confidence            599999999998863

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=88.27  E-value=0.18  Score=39.78  Aligned_cols=15  Identities=27%  Similarity=0.390  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+.
T Consensus        34 NGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           34 NGVGKTTVLKILAGE   48 (538)
T ss_dssp             TTSSHHHHHHHHTTS
T ss_pred             CCCcHHHHHHHHhcC
Confidence            599999999998874

>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=88.16  E-value=0.13  Score=36.39  Aligned_cols=24  Identities=8%  Similarity=0.331  Sum_probs=17.1

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          130 SFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       130 ~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +++.+.+-.  .++++++.|.+.+.+
T Consensus       235 ~~~~Id~~~--~~eev~~~I~~~l~~  258 (263)
T 1p5z_B          235 PILTLDVNE--DFKDKYESLVEKVKE  258 (263)
T ss_dssp             CEEEEECCS--CHHHHHHHHHHHHHH
T ss_pred             CEEEEECCC--CHHHHHHHHHHHHHH
Confidence            466666543  789998888887754

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=88.08  E-value=0.22  Score=33.34  Aligned_cols=38  Identities=16%  Similarity=0.127  Sum_probs=20.5

Q ss_pred             cEEEEEEECCChhHH-HHHHHHHHHHHHhCCCCceEEEEEeCCC
Q 030225           66 AAAVVVYDITSMDSF-ERAKKWVQELQRQGNPNLIMFLVANKVD  108 (181)
Q Consensus        66 d~~i~v~d~~~~~s~-~~~~~~~~~~~~~~~~~~p~ivi~nK~D  108 (181)
                      +.-++++|-..  .+ .++..++..+..   .+.++++.|...|
T Consensus        76 ~~dvviIDE~Q--~~~~~~~~~l~~l~~---~~~~Vi~~Gl~~~  114 (184)
T 2orw_A           76 DTRGVFIDEVQ--FFNPSLFEVVKDLLD---RGIDVFCAGLDLT  114 (184)
T ss_dssp             TEEEEEECCGG--GSCTTHHHHHHHHHH---TTCEEEEEEESBC
T ss_pred             CCCEEEEECcc--cCCHHHHHHHHHHHH---CCCCEEEEeeccc
Confidence            34466777432  22 223334443433   3678888888766

>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=88.06  E-value=0.2  Score=37.16  Aligned_cols=15  Identities=33%  Similarity=0.339  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+...
T Consensus        53 ~G~GKTtl~~~l~~~   67 (389)
T 1fnn_A           53 PGTGKTVTLRKLWEL   67 (389)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998764

>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=88.02  E-value=0.21  Score=36.10  Aligned_cols=15  Identities=33%  Similarity=0.366  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        58 ~GtGKT~la~ala~~   72 (301)
T 3cf0_A           58 PGCGKTLLAKAIANE   72 (301)
T ss_dssp             SSSSHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHH
Confidence            799999999998864

>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=88.01  E-value=0.22  Score=34.02  Aligned_cols=23  Identities=13%  Similarity=0.306  Sum_probs=16.2

Q ss_pred             EEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          131 FLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       131 ~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +..+.+.  ..++++++.+.+.+.+
T Consensus       182 l~~Idg~--~~~~eV~~~I~~~l~e  204 (206)
T 3sr0_A          182 LRIIDAS--KPVEEVYRQVLEVIGD  204 (206)
T ss_dssp             EEEEETT--SCHHHHHHHHHHHHC-
T ss_pred             EEEEECC--CCHHHHHHHHHHHHcc
Confidence            5566653  3699999999887754

>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=87.91  E-value=0.19  Score=40.21  Aligned_cols=15  Identities=40%  Similarity=0.410  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|+|||||++.+.+.
T Consensus       126 NGsGKSTLlkiL~Gl  140 (607)
T 3bk7_A          126 NGTGKTTAVKILAGQ  140 (607)
T ss_dssp             TTSSHHHHHHHHTTS
T ss_pred             CCChHHHHHHHHhCC
Confidence            599999999998864

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=87.89  E-value=0.23  Score=34.15  Aligned_cols=27  Identities=11%  Similarity=0.076  Sum_probs=18.8

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          128 GLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       128 ~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ...++.+.+.  ..++++++.+.+.+.+.
T Consensus       181 ~~~~~vIDa~--~s~eeV~~~I~~~l~~~  207 (213)
T 4edh_A          181 PERYQVLDAG--LPLAEVQAGLDRLLPNL  207 (213)
T ss_dssp             TTTEEEEETT--SCHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEeCC--CCHHHHHHHHHHHHHHH
Confidence            3357777764  47899988888776553

>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=87.87  E-value=0.2  Score=39.92  Aligned_cols=15  Identities=20%  Similarity=0.370  Sum_probs=12.9

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus       378 sGsGKSTLl~~l~g~  392 (582)
T 3b60_A          378 SGSGKSTIASLITRF  392 (582)
T ss_dssp             TTSSHHHHHHHHTTT
T ss_pred             CCCCHHHHHHHHhhc
Confidence            699999999988764

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=87.80  E-value=0.44  Score=34.09  Aligned_cols=67  Identities=16%  Similarity=0.199  Sum_probs=41.1

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHH---H-------------H---HHHHHh-CCCC-ce
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKK---W-------------V---QELQRQ-GNPN-LI   99 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~---~-------------~---~~~~~~-~~~~-~p   99 (181)
                      +.+.|+|+|+..  .......+..+|.+|++...+. .+...+..   +             +   +.+... ..+. .+
T Consensus       104 yD~viiD~p~~~--~~~~~~~l~~aD~viiv~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  180 (286)
T 2xj4_A          104 CDFILIDTPGGD--SAITRMAHGRADLVVTPMNDSF-VDFDMLGTVDPVTLELTKPSLYSLTVWEGRKQRALSGQRQAMD  180 (286)
T ss_dssp             CSEEEEECCSSC--CHHHHHHHHTCSEEEEEEESSH-HHHTTTEEECTTTCCEEEECHHHHHHHHHHHHHHHHCSSCCCE
T ss_pred             CCEEEEcCCCCc--cHHHHHHHHHCCEEEEEEcCCc-cHHHHHHHHHHHhhhccccchhhhhhhcchhhhhhccCCcccc
Confidence            568899999864  3334566788999999998752 33322211   1             2   222221 1245 67


Q ss_pred             EEEEEeCCCCc
Q 030225          100 MFLVANKVDLE  110 (181)
Q Consensus       100 ~ivi~nK~D~~  110 (181)
                      +.+|+|+.+..
T Consensus       181 ~~vV~N~~~~~  191 (286)
T 2xj4_A          181 WVVLRNRLATT  191 (286)
T ss_dssp             EEEEEECCTTC
T ss_pred             EEEEEeeecCC
Confidence            78999999853

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=87.79  E-value=0.18  Score=34.64  Aligned_cols=14  Identities=29%  Similarity=0.562  Sum_probs=12.2

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+||||++.++..
T Consensus        67 PGtGKTt~a~ala~   80 (212)
T 1tue_A           67 ANTGKSYFGMSFIH   80 (212)
T ss_dssp             GGGCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999888865

>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=87.69  E-value=0.23  Score=35.99  Aligned_cols=85  Identities=14%  Similarity=0.081  Sum_probs=46.9

Q ss_pred             EEEEEEeCCChhhhhc--c--chhhcc--CCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccccc
Q 030225           41 IKFDIWDTAGQERYHS--L--APMYYR--GAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK  114 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~--~--~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~  114 (181)
                      +.+.|+||+|......  +  ....+.  ..+..++|+|++..  ...+..+...+.   .-+ ..-+|.||.|....  
T Consensus       183 ~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~~--~~~~~~~~~~~~---~l~-~~giVltk~D~~~~--  254 (296)
T 2px0_A          183 YDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAK--YEDMKHIVKRFS---SVP-VNQYIFTKIDETTS--  254 (296)
T ss_dssp             SSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTBC--HHHHHHHTTTTS---SSC-CCEEEEECTTTCSC--
T ss_pred             CCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCCC--HHHHHHHHHHHh---cCC-CCEEEEeCCCcccc--
Confidence            4688999999653321  1  112232  36788899987632  333333333221   111 23456799996431  


Q ss_pred             CCHHHHHHHHHHcCCeEEEEe
Q 030225          115 VKNEEGELYAQENGLSFLETS  135 (181)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~S  135 (181)
                        ...+...+...++++.+++
T Consensus       255 --~g~~~~~~~~~~~pi~~i~  273 (296)
T 2px0_A          255 --LGSVFNILAESKIGVGFMT  273 (296)
T ss_dssp             --CHHHHHHHHTCSCCCSEEC
T ss_pred             --hhHHHHHHHHHCcCEEEEE
Confidence              2245566667788876554

>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=87.61  E-value=0.23  Score=36.16  Aligned_cols=86  Identities=17%  Similarity=0.082  Sum_probs=46.8

Q ss_pred             EEEEEEeCCChhhhhc-c------chhh-----ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCC
Q 030225           41 IKFDIWDTAGQERYHS-L------APMY-----YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVD  108 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~-~------~~~~-----~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D  108 (181)
                      +.+.++|+||...... +      ....     -..++.+++|+|....  .+.+. ....+...   -...-+|.||.|
T Consensus       187 ~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t~--~~~l~-~a~~~~~~---~~i~gvVlTk~D  260 (306)
T 1vma_A          187 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTG--QNGLV-QAKIFKEA---VNVTGIILTKLD  260 (306)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGH--HHHHH-HHHHHHHH---SCCCEEEEECGG
T ss_pred             CCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCC--HHHHH-HHHHHHhc---CCCCEEEEeCCC
Confidence            4578999999522111 0      0111     1347889999998733  22222 12223222   123456679999


Q ss_pred             CcccccCCHHHHHHHHHHcCCeEEEEec
Q 030225          109 LEEKRKVKNEEGELYAQENGLSFLETSA  136 (181)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  136 (181)
                      ....    .-.+.......+.|+.+++.
T Consensus       261 ~~~~----gG~~l~~~~~~~~Pi~~i~~  284 (306)
T 1vma_A          261 GTAK----GGITLAIARELGIPIKFIGV  284 (306)
T ss_dssp             GCSC----TTHHHHHHHHHCCCEEEEEC
T ss_pred             Cccc----hHHHHHHHHHHCCCEEEEeC
Confidence            5321    12356667778888877743

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=87.59  E-value=0.21  Score=39.40  Aligned_cols=16  Identities=31%  Similarity=0.349  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+..
T Consensus       303 nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          303 NGIGKTTFARILVGEI  318 (538)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHhCCC
Confidence            5999999999998743

>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=87.38  E-value=0.22  Score=39.64  Aligned_cols=15  Identities=27%  Similarity=0.483  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus       378 sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          378 SGSGKSTIANLFTRF  392 (582)
T ss_pred             CCCCHHHHHHHHhcC
Confidence            699999999988764

>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=87.34  E-value=0.24  Score=36.37  Aligned_cols=15  Identities=40%  Similarity=0.627  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+||||+++.+.+.
T Consensus        55 ~G~GKTtla~~la~~   69 (340)
T 1sxj_C           55 PGTGKTSTIVALARE   69 (340)
T ss_dssp             SSSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998764

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=87.33  E-value=0.24  Score=33.77  Aligned_cols=26  Identities=8%  Similarity=0.175  Sum_probs=18.0

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          129 LSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       129 ~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      -.+..+.|.  ..++++.+.+.+.+.+.
T Consensus       176 ~~~~~IDa~--~~~e~V~~~i~~~i~~~  201 (205)
T 4hlc_A          176 QRFKSVNAD--QPLENVVEDTYQTIIKY  201 (205)
T ss_dssp             TTEEEEETT--SCHHHHHHHHHHHHHHH
T ss_pred             CCEEEEECC--CCHHHHHHHHHHHHHHH
Confidence            346667663  46888888888777653

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=87.25  E-value=0.17  Score=40.00  Aligned_cols=15  Identities=27%  Similarity=0.459  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.|.+.
T Consensus       378 sGSGKSTLar~La~~  392 (552)
T 3cr8_A          378 SGAGKSTLARALAAR  392 (552)
T ss_dssp             SCHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHh
Confidence            699999999988754

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=87.20  E-value=0.25  Score=31.42  Aligned_cols=16  Identities=19%  Similarity=0.083  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+|||+|++.+....
T Consensus        33 ~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           33 PGTGRMTGARYLHQFG   48 (145)
T ss_dssp             TTSSHHHHHHHHHHSS
T ss_pred             CCCCHHHHHHHHHHhC
Confidence            7999999999887643

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=87.19  E-value=0.25  Score=36.60  Aligned_cols=15  Identities=33%  Similarity=0.512  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+...
T Consensus        53 ~G~GKT~l~~~~~~~   67 (387)
T 2v1u_A           53 TGTGKTAVARLVLRR   67 (387)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999988753

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=87.14  E-value=0.25  Score=36.00  Aligned_cols=15  Identities=33%  Similarity=0.503  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|+|||||++.+...
T Consensus        40 ~G~GKT~Ll~~~~~~   54 (350)
T 2qen_A           40 RRVGKSSLLRAFLNE   54 (350)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHH
Confidence            689999999998754

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=87.12  E-value=5.3  Score=28.34  Aligned_cols=88  Identities=16%  Similarity=0.178  Sum_probs=49.7

Q ss_pred             EEEEEEEeCCChhhhhccc-hhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhC-CCCce-EEEEEeCCCCcccccCC
Q 030225           40 TIKFDIWDTAGQERYHSLA-PMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQG-NPNLI-MFLVANKVDLEEKRKVK  116 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p-~ivi~nK~D~~~~~~~~  116 (181)
                      .+.+.|+|+||........ ......+|.+|++... +..++..+...++.+.... ..+.+ .-+|.|+.+...    .
T Consensus       118 ~yD~ViID~~~~~~~~~~~~~~~~~~aD~viiv~~~-~~~s~~~~~~~~~~l~~~~~~~~~~~~gvv~N~~~~~~----~  192 (289)
T 2afh_E          118 DLDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSG-EMMAMYAANNISKGIVKYANSGSVRLGGLICNSRNTDR----E  192 (289)
T ss_dssp             TCSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECS-SHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCTT----H
T ss_pred             CCCEEEEeCCCccccchhhhhhhhhhCCEEEEEecC-CHHHHHHHHHHHHHHHHHHhcCCCceEEEEEecCCchh----H
Confidence            4678899999853221111 1223568999999886 4566666665555554421 13445 457789886321    1


Q ss_pred             HHHHHHHHHHcCCeEE
Q 030225          117 NEEGELYAQENGLSFL  132 (181)
Q Consensus       117 ~~~~~~~~~~~~~~~~  132 (181)
                      .+....+.+.++.+++
T Consensus       193 ~~~~~~l~~~~g~~~l  208 (289)
T 2afh_E          193 DELIIALANKLGTQMI  208 (289)
T ss_dssp             HHHHHHHHHHHTSCEE
T ss_pred             HHHHHHHHHHcCcccc
Confidence            2333445555666554

>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=87.10  E-value=0.25  Score=37.45  Aligned_cols=13  Identities=31%  Similarity=0.478  Sum_probs=11.7

Q ss_pred             CCCchhHHHHHHh
Q 030225            1 MGTGKTSLVLRFV   13 (181)
Q Consensus         1 ~~~GKttLl~~l~   13 (181)
                      ||+|||||+..|+
T Consensus       187 sGsGKTTLl~~la  199 (400)
T 3lda_A          187 FRTGKSQLCHTLA  199 (400)
T ss_dssp             TTSSHHHHHHHHH
T ss_pred             CCCChHHHHHHHH
Confidence            7999999999875

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=87.07  E-value=0.27  Score=33.94  Aligned_cols=23  Identities=17%  Similarity=0.391  Sum_probs=17.1

Q ss_pred             EEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          131 FLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       131 ~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ++.+.+.  ..++++++.|...+.+
T Consensus       191 l~~Idg~--~~~eeV~~~I~~~l~k  213 (217)
T 3umf_A          191 VITIDAS--GTVDAIFDKVNHELQK  213 (217)
T ss_dssp             EEEEETT--SCHHHHHHHHHHHHHT
T ss_pred             EEEEECC--CCHHHHHHHHHHHHHH
Confidence            5666654  3699999999887754

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=87.03  E-value=0.26  Score=36.02  Aligned_cols=15  Identities=27%  Similarity=0.282  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|+|||||++.+...
T Consensus        39 ~G~GKT~L~~~~~~~   53 (357)
T 2fna_A           39 RRTGKSSIIKIGINE   53 (357)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHh
Confidence            699999999998753

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=87.02  E-value=0.21  Score=34.73  Aligned_cols=26  Identities=12%  Similarity=0.174  Sum_probs=18.2

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          128 GLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       128 ~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ...++.+.+.  ..++++++.+.+.+.+
T Consensus       201 ~~~~~vIDa~--~s~eeV~~~I~~~l~~  226 (227)
T 3v9p_A          201 PHRFVIVDSS--EPIAQIRKQLEGVLAA  226 (227)
T ss_dssp             TTTEEEEETT--SCHHHHHHHHHHHHHH
T ss_pred             cCCEEEEeCC--CCHHHHHHHHHHHHHh
Confidence            3356777664  5799999988877653

>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=86.91  E-value=0.26  Score=39.52  Aligned_cols=16  Identities=31%  Similarity=0.389  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|+|||||++.+.+..
T Consensus       391 NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          391 NGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             TTSSHHHHHHHHHTSS
T ss_pred             CCCCHHHHHHHHhcCC
Confidence            5999999999998743

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=86.89  E-value=0.26  Score=38.88  Aligned_cols=16  Identities=31%  Similarity=0.389  Sum_probs=13.7

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+..
T Consensus       321 NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          321 NGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             TTSSHHHHHHHHHTSS
T ss_pred             CCCCHHHHHHHHhCCC
Confidence            5899999999998743

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=86.76  E-value=0.29  Score=34.26  Aligned_cols=25  Identities=12%  Similarity=0.216  Sum_probs=18.6

Q ss_pred             EEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225          131 FLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       131 ~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ++.+.+.  ..++++.+.+...+.+.-
T Consensus       206 ~~vIDa~--~sieeV~~~I~~~l~~~l  230 (236)
T 3lv8_A          206 VVMIDAA--QSIEQVTADIRRALQDWL  230 (236)
T ss_dssp             EEEEETT--SCHHHHHHHHHHHHHHHH
T ss_pred             EEEEeCC--CCHHHHHHHHHHHHHHHH
Confidence            6667763  479999999888877653

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=86.74  E-value=0.28  Score=35.33  Aligned_cols=14  Identities=43%  Similarity=0.707  Sum_probs=11.7

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+|||+|++.+..
T Consensus        76 ~GtGKT~la~~la~   89 (309)
T 3syl_A           76 PGTGKTTVALKMAG   89 (309)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999986654

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=86.72  E-value=0.16  Score=36.62  Aligned_cols=14  Identities=21%  Similarity=0.456  Sum_probs=9.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +||||||+.+.|..
T Consensus        14 sGSGKSTva~~L~~   27 (290)
T 1a7j_A           14 SGAGTSTVKHTFDQ   27 (290)
T ss_dssp             C---CCTHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999998864

>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=86.66  E-value=0.28  Score=34.70  Aligned_cols=15  Identities=27%  Similarity=0.406  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        73 ~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           73 PHSGKTALAAKIAEE   87 (272)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHH
Confidence            799999999998764

>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=86.61  E-value=0.28  Score=35.16  Aligned_cols=15  Identities=40%  Similarity=0.552  Sum_probs=12.9

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        59 ~GtGKT~la~~la~~   73 (310)
T 1ofh_A           59 TGVGKTEIARRLAKL   73 (310)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999988753

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=86.50  E-value=0.29  Score=33.90  Aligned_cols=14  Identities=21%  Similarity=0.375  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +||||||+.+.|..
T Consensus        25 ~gsGKst~~~~l~~   38 (236)
T 1q3t_A           25 ASSGKSTVAKIIAK   38 (236)
T ss_dssp             SCSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999998875

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=86.43  E-value=0.24  Score=39.61  Aligned_cols=15  Identities=33%  Similarity=0.521  Sum_probs=12.8

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus       390 sGsGKSTll~~l~g~  404 (598)
T 3qf4_B          390 TGSGKTTIVNLLMRF  404 (598)
T ss_dssp             TTSSTTHHHHHHTTS
T ss_pred             CCCcHHHHHHHHhcC
Confidence            699999999888754

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=86.33  E-value=0.3  Score=36.61  Aligned_cols=15  Identities=47%  Similarity=0.525  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+...
T Consensus        61 ~G~GKT~L~~~~~~~   75 (412)
T 1w5s_A           61 VGIGKTTLAKFTVKR   75 (412)
T ss_dssp             CSSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998753

>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=86.33  E-value=0.3  Score=35.81  Aligned_cols=15  Identities=53%  Similarity=0.685  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+...
T Consensus        67 ~G~GKT~la~~la~~   81 (353)
T 1sxj_D           67 PGTGKTSTILALTKE   81 (353)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999988754

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=86.30  E-value=0.29  Score=37.50  Aligned_cols=15  Identities=33%  Similarity=0.390  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+.+.
T Consensus       139 ~G~GKTtLa~aia~~  153 (440)
T 2z4s_A          139 VGLGKTHLLQSIGNY  153 (440)
T ss_dssp             SSSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999988753

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=86.19  E-value=0.3  Score=39.17  Aligned_cols=16  Identities=38%  Similarity=0.488  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|+|||||++.+.+..
T Consensus       387 NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          387 NGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             TTSSHHHHHHHHHTSS
T ss_pred             CCCcHHHHHHHHhcCC
Confidence            5999999999998744

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=86.18  E-value=0.32  Score=33.39  Aligned_cols=26  Identities=12%  Similarity=0.119  Sum_probs=18.6

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          129 LSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       129 ~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      -.++.+.+  ...++++++.+.+.+.+.
T Consensus       182 ~~~~vIDa--~~s~eeV~~~I~~~l~~~  207 (213)
T 4tmk_A          182 KSIHTIDA--TQPLEAVMDAIRTTVTHW  207 (213)
T ss_dssp             TTEEEEET--TSCHHHHHHHHHHHHHHH
T ss_pred             CcEEEECC--CCCHHHHHHHHHHHHHHH
Confidence            35666766  357899998888877654

>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=85.99  E-value=0.33  Score=32.97  Aligned_cols=13  Identities=38%  Similarity=0.601  Sum_probs=11.3

Q ss_pred             CCCchhHHHHHHh
Q 030225            1 MGTGKTSLVLRFV   13 (181)
Q Consensus         1 ~~~GKttLl~~l~   13 (181)
                      .|+|||||+.++.
T Consensus        32 NgsGKStil~ai~   44 (203)
T 3qks_A           32 NGSGKSSLLDAIL   44 (203)
T ss_dssp             TTSSHHHHHHHHH
T ss_pred             CCCCHHHHHHHHH
Confidence            4899999999874

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=85.97  E-value=0.33  Score=33.61  Aligned_cols=14  Identities=29%  Similarity=0.370  Sum_probs=12.1

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +||||||+++.|..
T Consensus        30 ~g~GKst~~~~l~~   43 (223)
T 3ld9_A           30 DGSGKTTQSHLLAE   43 (223)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999998864

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=85.96  E-value=0.33  Score=33.42  Aligned_cols=29  Identities=14%  Similarity=-0.004  Sum_probs=19.9

Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225          128 GLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       128 ~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ...++.+.+- +..++++.+.+.+.+.+.-
T Consensus       176 ~~~~~vID~a-~~s~eeV~~~I~~~i~~~l  204 (216)
T 3tmk_A          176 DESITIVDVT-NKGIQEVEALIWQIVEPVL  204 (216)
T ss_dssp             CCSEEEEECT-TCCHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEeCC-CCCHHHHHHHHHHHHHHHH
Confidence            3467777732 3578999998888776653

>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=85.92  E-value=0.33  Score=32.44  Aligned_cols=15  Identities=13%  Similarity=0.220  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ++||||+|..+|...
T Consensus         8 ~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            8 ARSGKSRHAEALIGD   22 (180)
T ss_dssp             TTSSHHHHHHHHHCS
T ss_pred             CCCcHHHHHHHHHhc
Confidence            689999999999855

---

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	181
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	7e-45
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	7e-45
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	2e-43
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	5e-41
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	7e-41
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	8e-41
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	4e-39
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	2e-38
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	4e-38
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	5e-38
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	3e-37
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	4e-35
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	1e-34
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	2e-34
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	1e-32
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	2e-32
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	2e-31
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	2e-30
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	3e-30
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	1e-29
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	2e-29
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	3e-29
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	1e-28
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	2e-28
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	1e-27
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	3e-27
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	4e-27
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	5e-27
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	2e-26
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	3e-26
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	4e-26
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	4e-26
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	3e-25
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	6e-25
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	1e-23
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	2e-23
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	2e-22
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	3e-22
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	4e-22
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	7e-22
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	7e-22
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	3e-21
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	7e-21
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	8e-20
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	6e-19
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-18
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	7e-18
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	2e-17
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	4e-17
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	2e-16
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	5e-16
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	6e-14
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	5e-13
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	1e-12
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	7e-12
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	8e-11
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	4e-07
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	7e-07
d1mkya1	171	c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal	2e-04
d2qn6a3	205	c.37.1.8 (A:2-206) Initiation factor eIF2 gamma su	4e-04
d1wf3a1	178	c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {	5e-04
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	8e-04
d1svia_	195	c.37.1.8 (A:) Probable GTPase EngB {Bacillus subti	0.001
d1mkya2	186	c.37.1.8 (A:173-358) Probable GTPase Der, N-termin	0.001

>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 =  144 bits (363), Expect = 7e-45
 Identities = 63/154 (40%), Positives = 95/154 (61%), Gaps = 1/154 (0%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L++RFV+ +F     +TIG  F  + + +N   +K  IWDTAGQER+ ++   Y
Sbjct: 12  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAY 71

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA   ++VYDIT   +F   K+W + +    N    + LV NK D+ E R V  ++GE
Sbjct: 72  YRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGE 130

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
             A+E G+ F+E+SAK+  NVNE+F+ +AK + E
Sbjct: 131 ALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQE 164

>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 =  144 bits (363), Expect = 7e-45
 Identities = 58/152 (38%), Positives = 92/152 (60%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT ++ RF +  F     STIG  F  + + L+   IK  IWDTAGQER+ ++   Y
Sbjct: 16  GVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAY 75

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA   ++VYDIT+  SF+  + W++ ++   + ++   ++ NK D+ +KR+V  E GE
Sbjct: 76  YRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGE 135

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             A + G+ F+ETSAK+  NV   F+ +A+ +
Sbjct: 136 KLALDYGIKFMETSAKANINVENAFFTLARDI 167

>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 =  140 bits (354), Expect = 2e-43
 Identities = 64/153 (41%), Positives = 94/153 (61%), Gaps = 1/153 (0%)

Query: 2   GTGKTSLVLRFVKGQFFDFQEST-IGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           G GKT L++RF  G F      + +G  F  +VL ++ V +K  +WDTAGQER+ S+   
Sbjct: 16  GVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHA 75

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
           YYR A A +++YD+T+  SF+  + W+ E+      ++ + L+ NKVD   +R VK E+G
Sbjct: 76  YYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDG 135

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           E  A+E GL F+ETSAK+  NV+  F  IAK L
Sbjct: 136 EKLAKEYGLPFMETSAKTGLNVDLAFTAIAKEL 168

>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 =  134 bits (337), Expect = 5e-41
 Identities = 64/152 (42%), Positives = 96/152 (63%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT LV RF +G F   Q +TIG  F  + + +N   +K  IWDTAGQER+ S+   Y
Sbjct: 15  GVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSY 74

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YR A A ++ YDIT  +SF    +W++E+++  +  +I  LV NK+DL E+R+V  +  E
Sbjct: 75  YRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAE 134

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +++   + +LETSAK + NV +LF ++A RL
Sbjct: 135 EFSEAQDMYYLETSAKESDNVEKLFLDLACRL 166

>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 =  134 bits (338), Expect = 7e-41
 Identities = 61/160 (38%), Positives = 95/160 (59%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+LRF    + +   STIG  F  + + L+  T+K  IWDTAGQER+ ++   Y
Sbjct: 16  GVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSY 75

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG+   ++VYD+T  +SF   K W+QE+ R     ++  LV NK DL++KR V+ +  +
Sbjct: 76  YRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAK 135

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
            +A  N + FLETSA  + NV + F  +A+++ E    + 
Sbjct: 136 EFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQN 175

>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 =  133 bits (335), Expect = 8e-41
 Identities = 65/152 (42%), Positives = 96/152 (63%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+ +F + +F      TIG  F T+++ ++   IK  IWDTAGQER+ ++   Y
Sbjct: 14  GVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSY 73

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGAA A++VYDIT   ++     W+ + +   NPN ++ L+ NK DLE +R V  EE +
Sbjct: 74  YRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAK 133

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +A+ENGL FLE SAK+  NV + F E AK++
Sbjct: 134 QFAEENGLLFLEASAKTGENVEDAFLEAAKKI 165

>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 =  129 bits (325), Expect = 4e-39
 Identities = 57/158 (36%), Positives = 90/158 (56%), Gaps = 1/158 (0%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL+LRF    F     +TIG  F  + +S++    K  IWDTAGQER+ +L P Y
Sbjct: 17  GVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSY 76

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA   ++VYD+T  D+F +   W+ EL+     N I+ ++      +E R+V   EG 
Sbjct: 77  YRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENREVDRNEGL 136

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
            +A+++ + F+E SAK+   V   F E+ +++ +  P 
Sbjct: 137 KFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQ-TPG 173

>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 =  127 bits (320), Expect = 2e-38
 Identities = 65/160 (40%), Positives = 98/160 (61%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L+ RF + +F    +STIG  F T+ + ++  TIK  IWDTAGQERY  +   Y
Sbjct: 14  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAY 73

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA  A++VYDI    ++E  ++W++EL+   + N+++ LV NK DL   R V  +E  
Sbjct: 74  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEAR 133

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
            +A++N LSF+ETSA  + NV E F  I   +  +   +Q
Sbjct: 134 AFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQ 173

>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 =  126 bits (318), Expect = 4e-38
 Identities = 57/154 (37%), Positives = 82/154 (53%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKTS + R+    F     ST+G  F  + +  N+  IK  IWDTAGQERY ++   Y
Sbjct: 15  SVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAY 74

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA   +++YDIT+ +SF   + W  +++     N  + LV NK D+E++R V +E G 
Sbjct: 75  YRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGR 134

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
             A   G  F E SAK   NV + F  +   + E
Sbjct: 135 QLADHLGFEFFEASAKDNINVKQTFERLVDVICE 168

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  126 bits (316), Expect = 5e-38
 Identities = 70/152 (46%), Positives = 105/152 (69%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKTSL+ RF+   F +  ++TIG  F ++ + L + TI+  +WDTAGQER+ SL P Y
Sbjct: 10  SVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSY 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
            R +AAAVVVYDIT+++SF++  KW+ +++ +   ++I+ LV NK DL +KR+V  EEGE
Sbjct: 70  IRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGE 129

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             A+E  + F+ETSAK+ +NV +LF  +A  L
Sbjct: 130 RKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 161

>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 =  124 bits (312), Expect = 3e-37
 Identities = 67/152 (44%), Positives = 101/152 (66%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+ L+L+F   +F    + TIG  F  ++++++   IK  IWDTAGQE + S+   Y
Sbjct: 13  GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSY 72

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGAA A++VYDIT  ++F     W+++ ++  + N+++ L+ NK DLE +R VK EEGE
Sbjct: 73  YRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGE 132

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +A+E+GL F+ETSAK+A NV E F   AK +
Sbjct: 133 AFAREHGLIFMETSAKTACNVEEAFINTAKEI 164

>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 =  119 bits (298), Expect = 4e-35
 Identities = 62/152 (40%), Positives = 97/152 (63%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGK+ L+ +F++ +F D    TIG  F ++++++    +K  IWDTAGQER+ S+   Y
Sbjct: 15  GTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSY 74

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGAA A++VYDITS +++     W+ + +   + N+++ L  NK DL+  R+V   E  
Sbjct: 75  YRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEAS 134

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            +AQEN L FLETSA +  NV E F + A+++
Sbjct: 135 RFAQENELMFLETSALTGENVEEAFVQCARKI 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 =  118 bits (296), Expect = 1e-34
 Identities = 45/165 (27%), Positives = 80/165 (48%), Gaps = 11/165 (6%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVL----------SLNEVTIKFDIWDTAGQ 51
           G GKT+ + R+   +F     +T+G  F  + +          S     +   +WDTAGQ
Sbjct: 15  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ 74

Query: 52  ERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLE 110
           ER+ SL   ++R A   ++++D+TS  SF   + W+ +LQ         + L+ NK DL 
Sbjct: 75  ERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLP 134

Query: 111 EKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
           ++R+V   +    A + G+ + ETSA +  NV +    +   + +
Sbjct: 135 DQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMK 179

>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 =  117 bits (293), Expect = 2e-34
 Identities = 100/152 (65%), Positives = 123/152 (80%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+SLVLRFVKGQF +FQESTIGAAF TQ + L++ T+KF+IWDTAGQERYHSLAPMY
Sbjct: 16  AVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMY 75

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA AA+VVYDIT+ +SF RAK WV+ELQRQ +PN+++ L  NK DL  KR V  +E +
Sbjct: 76  YRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQ 135

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            YA +N L F+ETSAK++ NVNE+F  IAK+L
Sbjct: 136 SYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>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 =  112 bits (281), Expect = 1e-32
 Identities = 68/154 (44%), Positives = 101/154 (65%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKTSLVLR+ + +F D   +T+GA+F T+ L++    +   IWDTAGQER+H+L P+Y
Sbjct: 13  CVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIY 72

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YR +  A++VYDIT  DSF++ K WV+EL++     + + +V NK+DLE++R V  +E E
Sbjct: 73  YRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAE 132

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
            YA+  G     TSAK    + ELF ++ KR+ E
Sbjct: 133 SYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 166

>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 =  112 bits (280), Expect = 2e-32
 Identities = 53/153 (34%), Positives = 88/153 (57%), Gaps = 2/153 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++FV G F +  + TI   F+ + + ++      +I DTAG E++ S+  +Y
Sbjct: 13  GVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLY 71

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
            +     ++VY + +  SF+  K    ++ R      + + LV NKVDLE +R+V + EG
Sbjct: 72  IKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEG 131

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
              A+E G  F+ETSAKS   V+ELF EI +++
Sbjct: 132 RALAEEWGCPFMETSAKSKTMVDELFAEIVRQM 164

>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 =  109 bits (273), Expect = 2e-31
 Identities = 84/155 (54%), Positives = 113/155 (72%), Gaps = 3/155 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+S+VLRFV   F + +E TIGAAF TQ +++NE T+KF+IWDTAGQER+ SLAPMY
Sbjct: 13  AVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMY 72

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL---EEKRKVKNE 118
           YR A AA+VVYD+T   SF +A+ WV+EL  Q + ++I+ LV NK+D+     +RKV  E
Sbjct: 73  YRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVARE 132

Query: 119 EGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           EGE  A+E GL F ETSAK+  NVN++F  I +++
Sbjct: 133 EGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI 167

>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 =  108 bits (269), Expect = 2e-30
 Identities = 38/173 (21%), Positives = 65/173 (37%), Gaps = 14/173 (8%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +   +F      T+   +   V+   E      ++DTAGQE Y  L P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGE-PYTLGLFDTAGQEDYDRLRPLS 71

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKN---- 117
           Y      +V + + S  SFE  K+          P     LV  ++DL +          
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAK 131

Query: 118 --------EEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
                   E  E  A++   + ++E SA +   +  +F E      E    ++
Sbjct: 132 NKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPPEPKK 184

>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 =  106 bits (265), Expect = 3e-30
 Identities = 71/152 (46%), Positives = 103/152 (67%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+S++ RFV+  F      TIGA+F T+ +       KF IWDTAG ER+ +LAPMY
Sbjct: 14  GVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMY 73

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRG+AAA++VYDIT  ++F   K WV+EL++ G P++++ +  NK DL + R+V   + +
Sbjct: 74  YRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAK 133

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            YA      F+ETSAK+A N+NELF EI++R+
Sbjct: 134 DYADSIHAIFVETSAKNAININELFIEISRRI 165

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

 Score =  105 bits (261), Expect = 1e-29
 Identities = 50/153 (32%), Positives = 92/153 (60%), Gaps = 2/153 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L L+F+  +F +  E T   ++  +V+  +   ++ DI DTAGQE Y ++   Y
Sbjct: 14  GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVL-DGEEVQIDILDTAGQEDYAAIRDNY 72

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
           +R     + V+ IT M+SF     + +++ R   + N+   LV NK DLE+KR+V  EE 
Sbjct: 73  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA 132

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +  A +  ++++ETSAK+  NV+++F+++ + +
Sbjct: 133 KNRADQWNVNYVETSAKTRANVDKVFFDLMREI 165

>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 =  105 bits (261), Expect = 2e-29
 Identities = 47/156 (30%), Positives = 75/156 (48%), Gaps = 4/156 (2%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SL+ R+V  +F      TIG  F  + L ++   +   IWDTAGQER+ SL   +
Sbjct: 16  GVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPF 75

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGN----PNLIMFLVANKVDLEEKRKVKN 117
           YRG+   ++ + +    SF+    W +E     +     +    ++ NK+D+ E++    
Sbjct: 76  YRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQVSTE 135

Query: 118 EEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           E            + ETSAK A NV   F E  +R+
Sbjct: 136 EAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 171

>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 =  104 bits (260), Expect = 3e-29
 Identities = 40/170 (23%), Positives = 72/170 (42%), Gaps = 14/170 (8%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F      T+    ++  + ++   +   +WDTAGQE Y  L P+ 
Sbjct: 15  AVGKTCLLISYTTNAFPGEYIPTVFD-NYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 73

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNE--- 118
           Y     +++ + + S  SFE  +       R   PN  + LV  K+DL + +    +   
Sbjct: 74  YPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKE 133

Query: 119 ---------EGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVNP 158
                    +G   A+E G + +LE SA +   +  +F E  + +    P
Sbjct: 134 KKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPP 183

>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 =  103 bits (256), Expect = 1e-28
 Identities = 35/164 (21%), Positives = 70/164 (42%), Gaps = 14/164 (8%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++ +    F +    T+    +   +++        ++DTAGQE Y  L P+ 
Sbjct: 19  AVGKTCLLMSYANDAFPEEYVPTVFD-HYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLS 77

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK------- 114
           Y      ++ + + +  SF+  K+      ++  PN+   L+  ++DL +  K       
Sbjct: 78  YPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLND 137

Query: 115 -----VKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKR 152
                +  E+G+  A+E G   ++E SA +   +  +F E    
Sbjct: 138 MKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIA 181

>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 =  102 bits (253), Expect = 2e-28
 Identities = 54/154 (35%), Positives = 81/154 (52%), Gaps = 5/154 (3%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSL-APM 60
             GKT L  RF  G+F D  E+TIG  F  + + ++   IK  +WDTAGQER+       
Sbjct: 12  NVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQH 71

Query: 61  YYRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEE 119
           YYR   A V VYD+T+M SF     W++E ++     ++   LV NK DL    +V  + 
Sbjct: 72  YYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDL 131

Query: 120 GELYAQENGLSFLETSAKSAH---NVNELFYEIA 150
            + +A  + +   ETSAK+ +   +V  +F  +A
Sbjct: 132 AQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLA 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 =  100 bits (248), Expect = 1e-27
 Identities = 43/163 (26%), Positives = 68/163 (41%), Gaps = 14/163 (8%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT L++   K QF +    T+    +   + ++   ++  +WDTAG E Y  L P+ 
Sbjct: 12  ACGKTCLLIVNSKDQFPEVYVPTVFE-NYVADIEVDGKQVELALWDTAGLEDYDRLRPLS 70

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKN---- 117
           Y      ++ + I S DS E   +      +   PN+ + LV NK DL      +     
Sbjct: 71  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAK 130

Query: 118 --------EEGELYAQENG-LSFLETSAKSAHNVNELFYEIAK 151
                   EEG   A   G   ++E SAK+   V E+F    +
Sbjct: 131 MKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 173

>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 = 98.9 bits (245), Expect = 3e-27
 Identities = 46/155 (29%), Positives = 83/155 (53%), Gaps = 3/155 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++ ++  F D  + TI  ++  QV+   E T   DI DTAGQE Y ++   Y
Sbjct: 13  GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGE-TCLLDILDTAGQEEYSAMRDQY 71

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R     + V+ I +  SFE   ++ ++++R   + ++ M LV NK DL  +     +  
Sbjct: 72  MRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQ 131

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
           +  A+  G+ ++ETSAK+   V + FY + + + +
Sbjct: 132 D-LARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>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 = 99.0 bits (245), Expect = 4e-27
 Identities = 56/156 (35%), Positives = 89/156 (57%), Gaps = 4/156 (2%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKTSL+ ++V  +F +  ++TIGA F T+ + +++  +   IWDTAGQER+ SL   +
Sbjct: 12  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAF 71

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNP----NLIMFLVANKVDLEEKRKVKN 117
           YRGA   V+V+D+T+ ++F+    W  E   Q +P    N    ++ NK+DLE ++    
Sbjct: 72  YRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATK 131

Query: 118 EEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
                   +N + + ETSAK A NV + F  IA+  
Sbjct: 132 RAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNA 167

>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 = 98.6 bits (244), Expect = 5e-27
 Identities = 46/153 (30%), Positives = 88/153 (57%), Gaps = 2/153 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++F++  F    + TI    +T+   +++   + DI DTAGQE + ++   Y
Sbjct: 15  GVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEEFGAMREQY 73

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQE-LQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R     ++V+ +T   SFE   K+ ++ L+ +      M L+ NK DL+ +R+V  EEG
Sbjct: 74  MRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEG 133

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +  A++  ++++E SAK   NV++ F+E+ + +
Sbjct: 134 QQLARQLKVTYMEASAKIRMNVDQAFHELVRVI 166

>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 = 97.0 bits (240), Expect = 2e-26
 Identities = 51/154 (33%), Positives = 91/154 (59%), Gaps = 3/154 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++FV+G F +  + TI  ++  QV    +     +I DTAG E++ ++  +Y
Sbjct: 13  GVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQ-QCMLEILDTAGTEQFTAMRDLY 71

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
            +      +VY IT+  +F   +   +++ R     ++ M LV NK DLE++R V  E+G
Sbjct: 72  MKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQG 131

Query: 121 ELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRL 153
           +  A++    +FLE+SAKS  NVNE+FY++ +++
Sbjct: 132 QNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>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 = 95.9 bits (237), Expect = 3e-26
 Identities = 25/156 (16%), Positives = 56/156 (35%), Gaps = 9/156 (5%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+++ +   G+       T        V ++    I F +WD  GQ++   L   Y
Sbjct: 10  AAGKTTILYKLKLGEI-----VTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHY 64

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVA----NKVDLEEKRKVKN 117
           ++     + V D    +    A++ +  +  +      + LV     +  +     ++ +
Sbjct: 65  FQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITD 124

Query: 118 EEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           + G    +        T A S   + E    ++ +L
Sbjct: 125 KLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 160

>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 = 96.3 bits (238), Expect = 4e-26
 Identities = 42/153 (27%), Positives = 77/153 (50%), Gaps = 2/153 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++F++  F            +T++ S++ +  + DI DTAGQE + ++   Y
Sbjct: 16  GVGKSALTIQFIQSYFVS-DYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQY 74

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R     ++V+ I    SF    K   ++ R     +  + LV NK DLE +R+V   E 
Sbjct: 75  MRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEA 134

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             +   + +++ E SAK   NV+E F ++ + +
Sbjct: 135 SAFGASHHVAYFEASAKLRLNVDEAFEQLVRAV 167

>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 = 96.3 bits (238), Expect = 4e-26
 Identities = 39/164 (23%), Positives = 75/164 (45%), Gaps = 15/164 (9%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+L+  F K  F +    T+    +T    ++   I+  +WDT+G   Y ++ P+ 
Sbjct: 12  QCGKTALLHVFAKDCFPENYVPTVFE-NYTASFEIDTQRIELSLWDTSGSPYYDNVRPLS 70

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEE---------- 111
           Y  + A ++ +DI+  ++ +   K  +   ++  PN  M LV  K DL            
Sbjct: 71  YPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSN 130

Query: 112 --KRKVKNEEGELYAQENG-LSFLETSAKSAHN-VNELFYEIAK 151
             +  V  ++G   A++ G  +++E SA  + N V ++F+    
Sbjct: 131 HRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATL 174

>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 = 93.6 bits (231), Expect = 3e-25
 Identities = 54/154 (35%), Positives = 85/154 (55%), Gaps = 1/154 (0%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+S++ R+ KG F    + TIG  F  + + +N+  ++  +WDTAGQE + ++   Y
Sbjct: 12  AVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAY 71

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           YRGA A V+V+  T  +SF  A    +E       ++   LV NK+DL +   +KNEE E
Sbjct: 72  YRGAQACVLVFSTTDRESF-EAISSWREKVVAEVGDIPTALVQNKIDLLDDSCIKNEEAE 130

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
             A+   L F  TS K   NV+E+F  +A++  +
Sbjct: 131 GLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ 164

>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 = 93.2 bits (230), Expect = 6e-25
 Identities = 48/154 (31%), Positives = 83/154 (53%), Gaps = 3/154 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L ++F +  F    + TI  ++       N+     D+ DTAGQE + ++   Y
Sbjct: 14  GVGKSALTIQFFQKIFVPDYDPTIEDSYLKHTEIDNQ-WAILDVLDTAGQEEFSAMREQY 72

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R     ++VY +T   SFE   ++ Q + R +   +  M LVANKVDL   RKV  ++G
Sbjct: 73  MRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQG 132

Query: 121 ELYAQENGLSFLETSAKSA-HNVNELFYEIAKRL 153
           +  A +  + ++ETSAK    NV++ F+++ + +
Sbjct: 133 KEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 166

>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 = 89.7 bits (221), Expect = 1e-23
 Identities = 58/163 (35%), Positives = 89/163 (54%), Gaps = 7/163 (4%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQ-VLSLNEVTIKFDIWDTAGQERYHSLAPM 60
           G GKTSL+ R+V  ++    ++TIGA F T+ V    +      +WDTAGQER+ SL   
Sbjct: 12  GVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVA 71

Query: 61  YYRGAAAAVVVYDITSMDSFE----RAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK 116
           +YRGA   V+VYD+T+  SFE       +++              ++ NK+D EE +K+ 
Sbjct: 72  FYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIV 131

Query: 117 NEEG-ELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAEVN 157
           +E+  +  A+  G +    TSAK+A NV+  F EIA+   + N
Sbjct: 132 SEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQN 174

>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 = 89.3 bits (220), Expect = 2e-23
 Identities = 50/152 (32%), Positives = 76/152 (50%), Gaps = 3/152 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK+SLVLRFVKG F +    T+   +   +     +     I DT G  ++ ++  + 
Sbjct: 12  GVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSI-CTLQITDTTGSHQFPAMQRLS 70

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGN--PNLIMFLVANKVDLEEKRKVKNEE 119
                A ++VY ITS  S E  K   +++        ++ + LV NK D    R+V++ E
Sbjct: 71  ISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSE 130

Query: 120 GELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
            E  A+    +F+ETSAK  HNV ELF E+  
Sbjct: 131 AEALARTWKCAFMETSAKLNHNVKELFQELLN 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 = 86.6 bits (213), Expect = 2e-22
 Identities = 51/154 (33%), Positives = 79/154 (51%), Gaps = 4/154 (2%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++LV+RF+  +F    + T+ + +  Q    ++  +  +I DTAGQE        +
Sbjct: 12  GVGKSALVVRFLTKRFIWEYDPTLESTYRHQATI-DDEVVSMEILDTAGQEDTIQ-REGH 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQ-ELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
            R     V+VYDIT   SFE          + +   N+ + LV NK DL+  R+V  EEG
Sbjct: 70  MRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEG 129

Query: 121 ELYAQENGLSFLETSAKSAH-NVNELFYEIAKRL 153
           E  A E   +F E SA +   N+ E+FYE+ + +
Sbjct: 130 EKLATELACAFYECSACTGEGNITEIFYELCREV 163

>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 = 85.9 bits (211), Expect = 3e-22
 Identities = 48/158 (30%), Positives = 88/158 (55%), Gaps = 4/158 (2%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           GTGKT+ V R + G+F     +T+G      V   N   IKF++WDTAGQE++  L   Y
Sbjct: 13  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 72

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
           Y  A  A++++D+TS  +++    W ++   +   N+ + L  NKVD+++++        
Sbjct: 73  YIQAQCAIIMFDVTSRVTYKNVPNWHRD-LVRVCENIPIVLCGNKVDIKDRKVKAKSI-- 129

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS 159
           ++ ++  L + + SAKS +N  + F  +A++L   +P+
Sbjct: 130 VFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIG-DPN 166

>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 = 85.8 bits (211), Expect = 4e-22
 Identities = 27/156 (17%), Positives = 55/156 (35%), Gaps = 9/156 (5%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+++ +F   +              + V  +     +F +WD  GQE   S    Y
Sbjct: 25  NAGKTTILYQFSMNEV-----VHTSPTIGSNVEEIVINNTRFLMWDIGGQESLRSSWNTY 79

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFL-VANKVDLEEK---RKVKN 117
           Y      +VV D T  +     ++ + ++    +      L  ANK D++E     ++  
Sbjct: 80  YTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQ 139

Query: 118 EEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
                  +++        A +   + +    +  RL
Sbjct: 140 FLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL 175

>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 = 85.0 bits (209), Expect = 7e-22
 Identities = 33/156 (21%), Positives = 61/156 (39%), Gaps = 9/156 (5%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+++ +   GQ       T+G    T         +KF++WD  GQ++   L   Y
Sbjct: 22  AAGKTTILYKLKLGQSVTTIP-TVGFNVETV----TYKNVKFNVWDVGGQDKIRPLWRHY 76

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRK---VKN 117
           Y G    + V D    D  + A++ +  +       + I+ + ANK DL +  K   ++ 
Sbjct: 77  YTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQE 136

Query: 118 EEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           + G    ++       + A S   + E    +    
Sbjct: 137 KLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY 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 = 85.4 bits (210), Expect = 7e-22
 Identities = 37/158 (23%), Positives = 63/158 (39%), Gaps = 9/158 (5%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT+++ R   G+    +  TIG    T    L+   +K ++WD  GQ         Y
Sbjct: 27  GAGKTTILYRLQIGEVVTTK-PTIGFNVET----LSYKNLKLNVWDLGGQTSIRPYWRCY 81

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLE---EKRKVKN 117
           Y   AA + V D T  D    A K +  + ++    +  + + ANK D        +V  
Sbjct: 82  YADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSK 141

Query: 118 EEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
           E   +  ++   S + +SA     + E    +   + E
Sbjct: 142 ELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKE 179

>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 = 83.2 bits (204), Expect = 3e-21
 Identities = 50/151 (33%), Positives = 75/151 (49%), Gaps = 2/151 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+SL ++FV+GQF D  + TI   F   + ++N       + DTAGQ+ Y      Y
Sbjct: 14  SVGKSSLTIQFVEGQFVDSYDPTIENTFTKLI-TVNGQEYHLQLVDTAGQDEYSIFPQTY 72

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWV-QELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG 120
                  ++VY +TS+ SFE  K    + L   G   + + LV NK DL  +R +  EEG
Sbjct: 73  SIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEG 132

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
           +  A+    +FLE+SAK      ++F  I  
Sbjct: 133 KALAESWNAAFLESSAKENQTAVDVFRRIIL 163

>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 = 82.5 bits (202), Expect = 7e-21
 Identities = 41/153 (26%), Positives = 68/153 (44%), Gaps = 3/153 (1%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GK++L   F      D  E+      + + + ++       ++D   Q+    L    
Sbjct: 11  GVGKSALARIFGG--VEDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHC 68

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFL-VANKVDLEEKRKVKNEEG 120
                A V+VY +T   SFE+A +   +L+R    + +  + V NK DL   R+V  +EG
Sbjct: 69  MAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEG 128

Query: 121 ELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
              A      F+ETSA   HNV  LF  + +++
Sbjct: 129 RACAVVFDCKFIETSAALHHNVQALFEGVVRQI 161

>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 = 80.0 bits (196), Expect = 8e-20
 Identities = 31/163 (19%), Positives = 63/163 (38%), Gaps = 7/163 (4%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
            +GK+SL+ RF+ G +   +     +  + + + ++  T    I + AG          +
Sbjct: 15  RSGKSSLIHRFLTGSYQVLE--KTESEQYKKEMLVDGQTHLVLIREEAGAPDAKF--SGW 70

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG- 120
                    + D  S  +  R    +  L+ +G   L + LV  +  +         +  
Sbjct: 71  ADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDAR 130

Query: 121 --ELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPSRQ 161
              L A     S+ ET A    NV+ +F E+A+++  +   +Q
Sbjct: 131 ARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQQQ 173

>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 = 77.0 bits (188), Expect = 6e-19
 Identities = 26/158 (16%), Positives = 52/158 (32%), Gaps = 9/158 (5%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+++ +F           TI       + +L     K +IWD  GQ+   S    Y
Sbjct: 12  NAGKTTILKKFNGEDV-----DTISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRNY 66

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKV---KN 117
           +      + V D       +  ++ +Q L  +       + + ANK DL         + 
Sbjct: 67  FESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQE 126

Query: 118 EEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
                  + +       SA +  ++      +   ++ 
Sbjct: 127 ALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISS 164

>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 = 76.9 bits (188), Expect = 1e-18
 Identities = 27/156 (17%), Positives = 50/156 (32%), Gaps = 9/156 (5%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+L+ +            T G    +          K ++WD  GQ +       Y
Sbjct: 26  NAGKTTLLKQLASEDI-SHITPTQGFNIKSV----QSQGFKLNVWDIGGQRKIRPYWRSY 80

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKR---KVKN 117
           +      + V D      FE   + + EL  +     + + + ANK DL       ++  
Sbjct: 81  FENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAE 140

Query: 118 EEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
                  ++        SA +   V +    + K +
Sbjct: 141 GLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>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 = 74.4 bits (181), Expect = 7e-18
 Identities = 33/158 (20%), Positives = 57/158 (36%), Gaps = 9/158 (5%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
           G GKT+++ R   G+       T        V ++    +KF +WD  G          Y
Sbjct: 15  GAGKTTILYRLQVGEV-----VTTIPTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRCY 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVK---N 117
           Y    A + V D    D    +K  +  +  +      I+ + ANK D+E+        N
Sbjct: 70  YSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMAN 129

Query: 118 EEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
             G    ++      +TSA     ++E    + + L  
Sbjct: 130 SLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKS 167

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 73.3 bits (178), Expect = 2e-17
 Identities = 41/155 (26%), Positives = 68/155 (43%), Gaps = 3/155 (1%)

Query: 2   GTGKTSLVLRFVKGQF-FDFQESTIGAAFFTQVLSLNEVTIKFDIWDTA-GQERYHSLAP 59
           G GK++L   F       D     +G   + + L ++  +    + D    +     L  
Sbjct: 13  GVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHD 72

Query: 60  MYYRGAAAAVVVYDITSMDSF-ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNE 118
              +   A ++VY IT   SF + ++  +Q  + +   ++ + LV NK DL   R+V   
Sbjct: 73  HCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVS 132

Query: 119 EGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           EG   A      F+ETSA   HNV ELF  I +++
Sbjct: 133 EGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 167

>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 = 72.4 bits (176), Expect = 4e-17
 Identities = 32/156 (20%), Positives = 63/156 (40%), Gaps = 8/156 (5%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
            +GKT+ V     GQF +    T+G         + +  +   +WD  GQ R+ S+   Y
Sbjct: 12  YSGKTTFVNVIASGQFNEDMIPTVGFNMRK----ITKGNVTIKLWDIGGQPRFRSMWERY 67

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNP-NLIMFLVANKVDLEE---KRKVKN 117
            RG +A V + D    +  E +K  +  L  +     + + ++ NK DL     ++++  
Sbjct: 68  CRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIE 127

Query: 118 EEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
           +      Q+  +     S K   N++     + +  
Sbjct: 128 KMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHS 163

>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 = 70.9 bits (172), Expect = 2e-16
 Identities = 24/161 (14%), Positives = 50/161 (31%), Gaps = 16/161 (9%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+L+      +      +T+   +      L    IKF  +D  G  +   L   Y
Sbjct: 10  NAGKTTLLHMLKNDRL-----ATLQPTWHPTSEELAIGNIKFTTFDLGGHIQARRLWKDY 64

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKN--- 117
           +      V + D    + F+ A+  +  L       ++   ++ NK+D            
Sbjct: 65  FPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRS 124

Query: 118 -------EEGELYAQENGLSFLETSAKSAHNVNELFYEIAK 151
                     +    +  +     S    +   E F  +++
Sbjct: 125 ALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQ 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 = 70.4 bits (171), Expect = 5e-16
 Identities = 23/193 (11%), Positives = 57/193 (29%), Gaps = 43/193 (22%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
            +GK++ + +            T G   +      +  ++ F + D  GQ          
Sbjct: 12  ESGKSTFIKQMRIIHG--SGVPTTGIIEYP----FDLQSVIFRMVDVGGQRSERRKWIHC 65

Query: 62  YRGAAAAVVVYDITSMDS-----------FERAKKWVQELQRQGNPNLIMFLVANKVDLE 110
           +    + + +  ++  D             E    +   +      N  + L  NK DL 
Sbjct: 66  FENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLL 125

Query: 111 EKRKVKNEEGELYAQENG--------------------------LSFLETSAKSAHNVNE 144
           E++ + +   + + + +G                          +    T A    N+  
Sbjct: 126 EEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRF 185

Query: 145 LFYEIAKRLAEVN 157
           +F  +   + ++N
Sbjct: 186 VFAAVKDTILQLN 198

>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 = 64.9 bits (157), Expect = 6e-14
 Identities = 20/165 (12%), Positives = 49/165 (29%), Gaps = 20/165 (12%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
            +GK++ + +    +    Q+ T G   +          + F + D  GQ          
Sbjct: 12  ESGKSTFLKQM---RIIHGQDPTKGIHEYD----FEIKNVPFKMVDVGGQRSERKRWFEC 64

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQE-----------LQRQGNPNLIMFLVANKVDLE 110
           +    + + +   +  D      +               +  +   N+ + L  NK DL 
Sbjct: 65  FDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLL 124

Query: 111 EKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
           E++       + + +  G        +    + E F    +   +
Sbjct: 125 EEKVQVVSIKDYFLEFEGDPHCLRDVQ--KFLVECFRGKRRDQQQ 167

>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 = 62.0 bits (149), Expect = 5e-13
 Identities = 24/168 (14%), Positives = 45/168 (26%), Gaps = 21/168 (12%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GKT+L+      +      +            L    + F  +D  G  +   +   Y
Sbjct: 23  NAGKTTLLHMLKDDRLGQHVPT-----LHPTSEELTIAGMTFTTFDLGGHIQARRVWKNY 77

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKV----- 115
                  V + D    +    +K+ +  L       N+ + ++ NK+D  E         
Sbjct: 78  LPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLRE 137

Query: 116 ----------KNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
                     K            L     S        E F  +A+ +
Sbjct: 138 MFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI 185

>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 = 61.3 bits (148), Expect = 1e-12
 Identities = 28/180 (15%), Positives = 47/180 (26%), Gaps = 24/180 (13%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
            +GK+++V +            T G              + F ++D  GQ          
Sbjct: 16  ESGKSTIVKQMRILHV----VLTSGIFETK----FQVDKVNFHMFDVGGQRDERRKWIQC 67

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWV-----------QELQRQGNPNLIMFLVANKVDL- 109
           +    A + V   +S +   R                     +    + + L  NK DL 
Sbjct: 68  FNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLL 127

Query: 110 EEKRKVKNEEGELYAQENGLSFLETSAKSAHN----VNELFYEIAKRLAEVNPSRQTGMK 165
            EK      + E Y  E         A         V    Y I      ++ +   G  
Sbjct: 128 AEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRH 187

>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 = 59.2 bits (142), Expect = 7e-12
 Identities = 27/162 (16%), Positives = 53/162 (32%), Gaps = 23/162 (14%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
            +GK+++V +           +  G              + F ++D  GQ          
Sbjct: 12  ESGKSTIVKQMKIIHE-----AGTG----IVETHFTFKDLHFKMFDVGGQRSERKKWIHC 62

Query: 62  YRGAAAAVVVYDITSMDSF-----------ERAKKWVQELQRQGNPNLIMFLVANKVDLE 110
           + G  A +    ++  D             E  K +      +   +  + L  NK DL 
Sbjct: 63  FEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLF 122

Query: 111 EKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKR 152
           E++  K+     Y +  G +  E +A     +   F ++ KR
Sbjct: 123 EEKIKKSPLTICYPEYAGSNTYEEAAA---YIQCQFEDLNKR 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 = 56.2 bits (134), Expect = 8e-11
 Identities = 22/119 (18%), Positives = 41/119 (34%), Gaps = 5/119 (4%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
            +GKT L +R + GQ+ D  +++I  +     ++ N       I     +     L   +
Sbjct: 10  DSGKTLLFVRLLTGQYRD-TQTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRF 68

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNL----IMFLVANKVDLEEKRKVK 116
              A A V V D  +     +            +  L     + +  NK D+   +  K
Sbjct: 69  KSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAK 127

>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 = 45.5 bits (106), Expect = 4e-07
 Identities = 19/152 (12%), Positives = 43/152 (28%), Gaps = 1/152 (0%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+SL+     G+         G         ++   +   I DTAG           
Sbjct: 11  NAGKSSLLNALA-GREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLREASDEVERI 69

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
               A   +      +   +       +        +        + +   +     E  
Sbjct: 70  GIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADITGETL 129

Query: 122 LYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
             ++ NG + +  SA++   V+ L   + + +
Sbjct: 130 GMSEVNGHALIRLSARTGEGVDVLRNHLKQSM 161

>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 = 45.4 bits (106), Expect = 7e-07
 Identities = 16/165 (9%), Positives = 40/165 (24%), Gaps = 19/165 (11%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER---YHSLA 58
            +GKTSL+              T+ +         +   +    +    + R      L 
Sbjct: 13  NSGKTSLLTLLTTDSV----RPTVVSQEPLSAADYDGSGVTLVDFPGHVKLRYKLSDYLK 68

Query: 59  PMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQ----GNPNLIMFLVANKVDLEEKRK 114
                      +V             +++ ++           + + +  NK +L   R 
Sbjct: 69  TRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARP 128

Query: 115 VKNEEGELYAQEN--------GLSFLETSAKSAHNVNELFYEIAK 151
               +  L ++           L+ +E               +  
Sbjct: 129 PSKIKDALESEIQKVIERRKKSLNEVERKINEEDYAENTLDVLQS 173

>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 = 38.2 bits (87), Expect = 2e-04
 Identities = 25/159 (15%), Positives = 50/159 (31%), Gaps = 4/159 (2%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK++L  + V  +     E   G        ++      F + DT G           
Sbjct: 10  NVGKSTLFNKLV-KKKKAIVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQ 68

Query: 62  YRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGE 121
                   ++ +   +      K+ + +        L    V   +   +   ++  E E
Sbjct: 69  KMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVDTILVANKAENLREFERE 128

Query: 122 LYAQENGLSFLE---TSAKSAHNVNELFYEIAKRLAEVN 157
           +  +   L F E    SA+   N++ +   I K+L E  
Sbjct: 129 VKPELYSLGFGEPIPVSAEHNINLDTMLETIIKKLEEKG 167

>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 = 37.2 bits (85), Expect = 4e-04
 Identities = 20/117 (17%), Positives = 37/117 (31%), Gaps = 7/117 (5%)

Query: 42  KFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMF 101
           +    D  G E   +           A++V          + ++    L   G  NLI+ 
Sbjct: 87  RISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIV 146

Query: 102 LVANKVDLEEKR---KVKNEEGELYAQENG--LSFLETSAKSAHNVNELFYEIAKRL 153
              NKVD+  K        +  +         +  +  SA    N++ L   I + +
Sbjct: 147 --QNKVDVVSKEEALSQYRQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYI 201

>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 = 36.6 bits (83), Expect = 5e-04
 Identities = 23/160 (14%), Positives = 44/160 (27%), Gaps = 9/160 (5%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK++L+   +  +                   L E   +    DT G  +       +
Sbjct: 15  NVGKSTLLNNLLGVKVAPI-SPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEF 73

Query: 62  YRGA------AAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV 115
                         VV+ +          + V    +     + + LV NK+D  +  + 
Sbjct: 74  MDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAAKYPEE 133

Query: 116 KNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE 155
             +       E        SA     V EL  ++   + E
Sbjct: 134 AMKAYHELLPEA--EPRMLSALDERQVAELKADLLALMPE 171

>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 = 36.3 bits (82), Expect = 8e-04
 Identities = 18/161 (11%), Positives = 48/161 (29%), Gaps = 10/161 (6%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSL------ 57
           GK+S +      +       T G      +  + +     D+      E    +      
Sbjct: 28  GKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGYAEVPEEMKRKWQR 87

Query: 58  ---APMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRK 114
                +  R +   +VV         +  ++ ++         L++   A+K+    ++ 
Sbjct: 88  ALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLVLLTKADKLASGARKA 147

Query: 115 VKNE-EGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA 154
             N     + A    +     S+     V++L  ++    +
Sbjct: 148 QLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLDTWFS 188

>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 = 35.9 bits (81), Expect = 0.001
 Identities = 22/161 (13%), Positives = 49/161 (30%), Gaps = 9/161 (5%)

Query: 2   GTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY 61
             GK+S +   +  +      S  G         +N+     D+      +   S    +
Sbjct: 33  NVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDELHFVDVPGYGFAKVSKSEREAW 92

Query: 62  YRGAAA---------AVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEK 112
            R             AVV              +  + L+  G P +++   A+K+   + 
Sbjct: 93  GRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIVIATKADKIPKGKW 152

Query: 113 RKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL 153
            K      +    +     +  S+++    +E +  I K +
Sbjct: 153 DKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMI 193

>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 = 35.8 bits (81), Expect = 0.001
 Identities = 27/164 (16%), Positives = 55/164 (33%), Gaps = 14/164 (8%)

Query: 4   GKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYR 63
           GK++L    +  +         G         +     K+   DTAG  R   + P    
Sbjct: 20  GKSTLFNAIL-NKERALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAGLRRKSRVEPRTVE 78

Query: 64  G-----------AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEK 112
                        A  VV+    +     + ++    ++R+G  ++++F   + V   EK
Sbjct: 79  KYSNYRVVDSIEKADVVVIVLDATQGITRQDQRMAGLMERRGRASVVVFNKWDLVVHREK 138

Query: 113 RKVKNEE--GELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA 154
           R  +  +   E     +    + TSA    N++ +   +    A
Sbjct: 139 RYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYA 182

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	181
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	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
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	100.0
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	100.0
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1r2qa_	170	Rab5a {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
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	100.0
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	100.0
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	100.0
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	100.0
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	100.0
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	100.0
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	100.0
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.97
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.97
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.97
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.97
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.95
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.93
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.92
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.92
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.91
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.91
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.91
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.91
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.89
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.89
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.89
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.88
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.87
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.86
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.86
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.85
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.85
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.83
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.83
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.83
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.8
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.79
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.78
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.77
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.76
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.66
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.65
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.65
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.65
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.61
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.59
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.55
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.54
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.52
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.43
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.32
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.3
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.28
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.1
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.01
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	98.99
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	98.91
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	98.74
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.62
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.61
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	98.44
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.29
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.28
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.2
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.09
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.0
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.79
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.41
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.09
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.0
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.76
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.58
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.52
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.45
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.13
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	95.96
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	95.6
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	95.53
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	95.47
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.32
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	95.31
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	95.17
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	95.07
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.01
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	94.9
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	94.87
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	94.86
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	94.8
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	94.78
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	94.62
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	94.53
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	94.48
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	94.48
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	94.38
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.35
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	94.24
d2awna2	232	Maltose transport protein MalK, N-terminal domain	94.21
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	94.11
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	94.0
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	93.91
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	93.88
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	93.71
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	93.71
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	93.7
d1okkd2	207	GTPase domain of the signal recognition particle r	93.69
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.63
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	93.6
d1g2912	240	Maltose transport protein MalK, N-terminal domain	93.53
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	93.51
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	93.47
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	93.46
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	93.43
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	93.38
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	93.36
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.29
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	93.26
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	93.25
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	93.24
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	93.23
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	93.2
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	93.16
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	92.97
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	92.9
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	92.89
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	92.85
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	92.83
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	92.77
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	92.75
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	92.73
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	92.73
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	92.69
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	92.66
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	92.59
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	92.32
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	92.27
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	92.27
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	92.25
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	92.19
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	92.1
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	91.99
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	91.97
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	91.93
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	91.93
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	91.82
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	91.69
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	91.63
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	91.57
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	91.36
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	91.23
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	91.16
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	90.95
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	90.86
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	90.75
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	90.68
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.61
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	90.45
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	90.34
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	90.12
d1j8yf2	211	GTPase domain of the signal sequence recognition p	90.07
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	90.05
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	89.87
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	89.43
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	89.31
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	88.93
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	88.71
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	88.69
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	88.58
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	88.46
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	88.25
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	88.15
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	88.02
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	87.9
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	87.73
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	87.69
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	87.49
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	87.38
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	86.86
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	86.65
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	86.57
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	86.47
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	86.4
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	86.34
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	86.21
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	86.14
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	86.0
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	85.97
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	85.83
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	85.61
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	85.59
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	85.23
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	85.0
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	84.25
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	84.09
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	83.94
d1okkd2	207	GTPase domain of the signal recognition particle r	83.71
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	83.65
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	83.55
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	83.38
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	82.78
d1j8yf2	211	GTPase domain of the signal sequence recognition p	82.75
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	82.53
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	81.79
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	81.57
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	81.51
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	81.36
d1eg7a_	549	Formyltetrahydrofolate synthetase {Moorella thermo	81.08
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	80.61
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	80.18

>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=5.5e-38  Score=211.55  Aligned_cols=156  Identities=37%  Similarity=0.632  Sum_probs=147.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+.+.+.++.+.++....+...+..+++.+||+||++.+..+++.+++++|++|+|||+++++++
T Consensus        14 ~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~ilv~d~~~~~s~   93 (169)
T d3raba_          14 SSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESF   93 (169)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECccchhh
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ..+..|+..+........|+++++||+|+.+...+..+++..+++.++++++++||++|.||+++|++|++.+.++
T Consensus        94 ~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~ek  169 (169)
T d3raba_          94 NAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEK  169 (169)
T ss_dssp             HTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHTC
T ss_pred             hhhhhhhhhhhcccCCcceEEEEEeecccccccccchhhhHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHHHhhC
Confidence            9999999888777778899999999999988889999999999999999999999999999999999999988753

>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=3.6e-38  Score=211.49  Aligned_cols=154  Identities=35%  Similarity=0.587  Sum_probs=145.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+...+.+|++.++.......++..+.+.+||++|+..+..++..+++++|++++|||+++++++
T Consensus        11 ~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   90 (164)
T d1z2aa1          11 GAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESF   90 (164)
T ss_dssp             TTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEEEeccchhhh
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|++.+.... ++.|+++|+||+|+.+.+++..+++..++++++++|+++||++|.||+++|++|++.+.+
T Consensus        91 ~~~~~~~~~i~~~~-~~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~~~lq  164 (164)
T d1z2aa1          91 EAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ  164 (164)
T ss_dssp             HTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHHC
T ss_pred             hhcccccccccccC-CCceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCCCcCHHHHHHHHHHHHhC
Confidence            99999999987764 678999999999998888999999999999999999999999999999999999998764

>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=4.3e-38  Score=211.70  Aligned_cols=155  Identities=44%  Similarity=0.775  Sum_probs=140.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+.+.+.+|.+.++.......++..+.+.+||++|+..+..+++.+++++|++|+|||+++++||
T Consensus        12 ~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~Sf   91 (167)
T d1z08a1          12 GCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSF   91 (167)
T ss_dssp             TTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEEEEeCCchhHH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+........|+++++||+|+...+++..+++..++++++++++++||++|.||+++|++|++.+.+
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~~~~v~e~F~~l~~~i~~  166 (167)
T d1z08a1          92 QKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE  166 (167)
T ss_dssp             HHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             HhhhhhhhhcccccccccceeeeccccccccccccchHHHHHHHHHcCCeEEEEecCCCcCHHHHHHHHHHHHhh
Confidence            999999998877666788999999999998888999999999999999999999999999999999999998865

>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=1.1e-37  Score=210.48  Aligned_cols=156  Identities=41%  Similarity=0.715  Sum_probs=147.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+.+.+.++++.++....+.+++..+++.+||+||++.+..+++.++++++++++|||++++.++
T Consensus        14 ~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~   93 (171)
T d2ew1a1          14 AGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESF   93 (171)
T ss_dssp             TTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceEEEeeecccchhh
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ..+..|+..+........|+++++||+|+.+..++..+++..+++.+++++++|||++|+||+++|.+|++++.+.
T Consensus        94 ~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gV~e~f~~l~~~l~~~  169 (171)
T d2ew1a1          94 RCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISE  169 (171)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhcccccccccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEccCCCCCHHHHHHHHHHHHHHh
Confidence            9999999999887667899999999999988888999999999999999999999999999999999999887654

>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=5.7e-37  Score=205.95  Aligned_cols=153  Identities=43%  Similarity=0.767  Sum_probs=145.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|+++.+.+.+.++++.++.......++..+++.+||++|++.+..++..+++++|++++|||+++.+++
T Consensus        13 ~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~   92 (166)
T d1z0fa1          13 MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTY   92 (166)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEEEEeccCchHHH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      ..+..|+..+........|+++++||+|+.....+..+++..+++.+++++++|||++|.||+++|++|++.+
T Consensus        93 ~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~v~e~f~~i~~~i  165 (166)
T d1z0fa1          93 NHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI  165 (166)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccccceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            9999999999887778999999999999988888888999999999999999999999999999999999876

>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=3.5e-37  Score=206.61  Aligned_cols=154  Identities=45%  Similarity=0.764  Sum_probs=145.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++++..........++..+.+.+||++|++.+...+..++.++|++++|||++++.++
T Consensus         9 ~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   88 (164)
T d1yzqa1           9 QSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSF   88 (164)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEeeccccccch
Confidence            69999999999999999999999999998888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      ..+..|+..+.....++.|+++|+||+|+.+..++..+++..+++.++++|++|||++|+||+++|++|++++.
T Consensus        89 ~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~f~~i~~~l~  162 (164)
T d1yzqa1          89 QQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP  162 (164)
T ss_dssp             HTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHSC
T ss_pred             hhhHhhHHHHHHhcCCCceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHhhC
Confidence            99999999988876788999999999999888888999999999999999999999999999999999998764

>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=5.3e-37  Score=206.49  Aligned_cols=155  Identities=26%  Similarity=0.329  Sum_probs=125.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.+..+.. ..++.+. .+...+.+++..+.+.+||++|++.+..++..+++++|++|+|||+++++++
T Consensus        10 ~~vGKTsLi~~~~~~~~~~-~~~~~~~-~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d~t~~~s~   87 (168)
T d2gjsa1          10 PGVGKSALARIFGGVEDGP-EAEAAGH-TYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSF   87 (168)
T ss_dssp             TTSSHHHHHHHHHTC----------CE-EEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHhCCccCC-cCCeeee-eecceeeccccccceeeeecccccccceecccchhhhhhhceeccccccccc
Confidence            6999999999999877644 3344444 3456678899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +.+..|+..+.... ....|+++|+||+|+.+.+++...++..+++.++++|+++||++|.||+++|++|++.+..++
T Consensus        88 ~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~~f~~l~~~i~~~~  165 (168)
T d2gjsa1          88 EKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRR  165 (168)
T ss_dssp             HHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhcccccccceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeCCCCcCHHHHHHHHHHHHHHHh
Confidence            99999999987754 367899999999999888899999999999999999999999999999999999999887664

>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=5e-37  Score=206.58  Aligned_cols=155  Identities=32%  Similarity=0.562  Sum_probs=139.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+.+.+...+.||++..+. ..+.+++..+.+.+||++|+..+..++..+++++|++++|||+++++++
T Consensus        13 ~~vGKTsli~~~~~~~f~~~~~~T~~~~~~-~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   91 (168)
T d1u8za_          13 GGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESF   91 (168)
T ss_dssp             TTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCcccCCccccccc-cccccccccccccccccccccchhhhhhhcccccceeEEEeeccchhhh
Confidence            699999999999999999999999987764 5567899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|++.+.+. ..++.|+++|+||+|+.+.+++..+++..+++.++++++++||++|.||+++|++|++.+.++
T Consensus        92 ~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~~r  168 (168)
T d1u8za_          92 AATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRAR  168 (168)
T ss_dssp             HHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             hhHHHHHHHHHHhhCCCCCcEEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHHHHHHHCc
Confidence            9999999998774 347889999999999988889999999999999999999999999999999999999987653

>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-36  Score=203.46  Aligned_cols=153  Identities=46%  Similarity=0.795  Sum_probs=146.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|..+.+.+.+.+|.+..+.......++....+.+||++|++.+..++..+++++|++|+|||++++++|
T Consensus        13 ~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   92 (167)
T d1z0ja1          13 TGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETF   92 (167)
T ss_dssp             TTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceEEEeeechhhhh
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +.+..|+..+.....+..|+++|+||+|+.+.+.+..++++.+++.++++|+++||++|.||+++|.+|++++
T Consensus        93 ~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~nV~e~f~~l~~~i  165 (167)
T d1z0ja1          93 STLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI  165 (167)
T ss_dssp             HHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             hhHHHhhhhhhhccCCcceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHhC
Confidence            9999999998887778999999999999988889999999999999999999999999999999999998876

>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=1.2e-36  Score=205.59  Aligned_cols=157  Identities=28%  Similarity=0.505  Sum_probs=143.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.++.+ +.....+.+++..+.+.+||++|++.+..++..+++++|++|+|||++++.++
T Consensus        15 ~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   93 (173)
T d2fn4a1          15 GGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSF   93 (173)
T ss_dssp             TTSSHHHHHHHHHHSSCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCcccccccc-cceeeEeccCCeeeeeeccccccccccccccchhhccceeeeeeccccccccc
Confidence            69999999999999999988877754 45567788899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      +.+..|+..+... ...+.|+++|+||+|+...+.+..+++..+++.++++|++|||++|.||+++|++|++.+.+.+.
T Consensus        94 ~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~k~~~  172 (173)
T d2fn4a1          94 NEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQE  172 (173)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHTT
T ss_pred             chhhhhhHHHHHHhccCCCceEEEEEeechhhccccchhhhhHHHHhcCCEEEEEeCCCCcCHHHHHHHHHHHHHHHhc
Confidence            9999999988764 34688999999999998888889999999999999999999999999999999999999877654

>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=1.1e-36  Score=204.66  Aligned_cols=153  Identities=33%  Similarity=0.487  Sum_probs=141.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.||++.++ ...+.+++..+.+.+||++|...+..++..+++++|++|+|||++++++|
T Consensus        13 ~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~   91 (167)
T d1xtqa1          13 RSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSF   91 (167)
T ss_dssp             TTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecCcEEEEeeecccccccccccccchhhhhhhhhhhhcccchhhhh
Confidence            69999999999999999999999998775 46678899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+.... ..+.|+++++||+|+...++++.+++..++++++++|+++||++|.||+++|+.|+..+.
T Consensus        92 ~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~~v~~~f~~li~~~~  166 (167)
T d1xtqa1          92 EVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAE  166 (167)
T ss_dssp             HHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhhhcccccccceeeeccccccccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHHhc
Confidence            99999999987643 467899999999999888889999999999999999999999999999999999998764

>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=2.5e-36  Score=207.62  Aligned_cols=159  Identities=38%  Similarity=0.693  Sum_probs=150.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++++..+....+.+++..+.+.+||+||++.+..++..+++++|++|+|||+++++++
T Consensus        15 ~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~i~v~d~t~~~s~   94 (194)
T d2bcgy1          15 SGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESF   94 (194)
T ss_dssp             TTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCcchhhh
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNPS  159 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~  159 (181)
                      ..+..|+..+........|+++++||.|+.+...+..++...++...++.++++||++|.||+++|++|++.+.+....
T Consensus        95 ~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~gi~e~f~~l~~~i~~~~~~  173 (194)
T d2bcgy1          95 NGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQ  173 (194)
T ss_dssp             HHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHHHHHHHHHHHCCH
T ss_pred             hhHhhhhhhhhhcccCCceEEEEEeccccccccchhHHHHhhhhhccCcceEEEecCcCccHHHHHHHHHHHHHHHhhh
Confidence            9999999998877778999999999999998889999999999999999999999999999999999999999876653

>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=2.1e-36  Score=204.65  Aligned_cols=157  Identities=39%  Similarity=0.677  Sum_probs=148.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|..+.+.+.+.++.+..+....+..++..+.+.+||+||++.+..+++.+++.+|++|+|||+++++++
T Consensus        14 ~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   93 (174)
T d2bmea1          14 AGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETY   93 (174)
T ss_dssp             TTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEEEEEEecccchhH
Confidence            69999999999999999999999999999889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ..+..|+..+......+.|+++++||+|+....+.....+..+++.++++++++||++|+||+++|++|++.+.++.
T Consensus        94 ~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gi~e~f~~l~~~i~~~~  170 (174)
T d2bmea1          94 NALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKI  170 (174)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhhcccccccCCceEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCCCcCHHHHHHHHHHHHHHHH
Confidence            99999999998877788999999999999888889999999999999999999999999999999999999987663

>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=2.6e-36  Score=204.36  Aligned_cols=158  Identities=41%  Similarity=0.707  Sum_probs=144.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+...+.++.+.+.....+..++..+.+.+||++|++.|..++..+++++|++|+|||.++++++
T Consensus        13 ~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~v~d~~~~~S~   92 (175)
T d2f9la1          13 SGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTY   92 (175)
T ss_dssp             TTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEEEEEECCCcccc
Confidence            69999999999999999999999999888899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      ..+..|+..+.....++.|+++|+||+|+.+.+....+....+...++.+++++||++|+|++++|++|++.+.+..+
T Consensus        93 ~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~i~e~f~~l~~~i~~~~~  170 (175)
T d2f9la1          93 ENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVS  170 (175)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHhcCCCCcEEEEEeeecccccccchHHHHHHhhcccCceEEEEecCCCcCHHHHHHHHHHHHHHHhh
Confidence            999999999988877889999999999998877788888888888899999999999999999999999998876543

>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=1.6e-36  Score=204.52  Aligned_cols=155  Identities=65%  Similarity=1.029  Sum_probs=146.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++.+.++........+..+.+.+||++|++.+..+++.+++++|++++|||.++.+++
T Consensus        15 ~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   94 (170)
T d1r2qa_          15 SAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESF   94 (170)
T ss_dssp             TTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEEEeccchhhHH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+.+...++.|+++++||+|+...+.++.+++..+++.++++|+++||++|+||+++|++|++.+.+
T Consensus        95 ~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~e~f~~l~~~i~~  169 (170)
T d1r2qa_          95 ARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK  169 (170)
T ss_dssp             HHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHTSCC
T ss_pred             HHHHHHhhhhhhccCCCceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCCHHHHHHHHHHHHhh
Confidence            999999999988777899999999999998888999999999999999999999999999999999999886643

>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=8.7e-37  Score=206.35  Aligned_cols=157  Identities=37%  Similarity=0.696  Sum_probs=118.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|+++.+...+.++++.++....+.+++..+.+.+||+||++.+..++..+++++|++|+|||++++.++
T Consensus        15 ~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~   94 (173)
T d2fu5c1          15 SGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSF   94 (173)
T ss_dssp             CCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEEEEEEECCChhhH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ..+..|+..+......+.|+++++||.|+........+++..++...++++++|||++|+||+++|++|++.+.++.
T Consensus        95 ~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~f~~l~~~i~~k~  171 (173)
T d2fu5c1          95 DNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKM  171 (173)
T ss_dssp             HHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhccCCceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            99999999998777788999999999999888888888889999999999999999999999999999999987653

>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-36  Score=202.79  Aligned_cols=157  Identities=43%  Similarity=0.766  Sum_probs=143.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|+++.+.+.+.++.+...........+..+.+.+||++|+..+..+++.+++++|++|+|||++++++|
T Consensus        12 ~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf   91 (173)
T d2a5ja1          12 TGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETF   91 (173)
T ss_dssp             TTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEEEEeecChHHH
Confidence            79999999999999999999999998888888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +.+..|+..+......++|+++++||+|+...+....+++..+++.++++|+++||++|.||+++|.+|++.+.++.
T Consensus        92 ~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~~V~e~f~~i~~~i~~~~  168 (173)
T d2a5ja1          92 NHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKI  168 (173)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHhCCCCCeEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHHH
Confidence            99999999998877788999999999999888888999999999999999999999999999999999999887653

>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=3.5e-36  Score=202.64  Aligned_cols=155  Identities=30%  Similarity=0.502  Sum_probs=141.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+.+.+.++.+..+ ...+..++..+.+.+||++|++.+..++..+++++|++++|||++|+++|
T Consensus        13 ~~vGKTsll~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv~d~~d~~Sf   91 (169)
T d1x1ra1          13 GGVGKSALTIQFFQKIFVPDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASF   91 (169)
T ss_dssp             TTSSHHHHHHHHHHSSCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCcccCcceeecc-ccccccccccccccccccccccccccchhhhhhhccEEEEecccccchhh
Confidence            68999999999999999998888887654 55678899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCC-CHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAH-NVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+..+.+. ...+.|+++++||+|+...+++..+++.++++.++++|+++||+++. ||+++|++|++.+.++
T Consensus        92 ~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~nV~~~F~~l~~~i~~~  169 (169)
T d1x1ra1          92 EHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ  169 (169)
T ss_dssp             HTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHHHHHHHHHC
T ss_pred             hccchhhHHHHhhccccCccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCCCCcCHHHHHHHHHHHHHhC
Confidence            9999999998765 34688999999999998888999999999999999999999999886 9999999999988763

>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=9.5e-37  Score=205.79  Aligned_cols=155  Identities=34%  Similarity=0.462  Sum_probs=139.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|+++.+.+.+.||++..+ ......++..+.+.+||++|.+.+...+..+++++|++++|||+++++++
T Consensus        11 ~~vGKTsLi~r~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~   89 (171)
T d2erxa1          11 GGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSL   89 (171)
T ss_dssp             TTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCCccCcceeecc-ccceeeccccceeccccccccccccccccccccceeEEEEEeecccccch
Confidence            69999999999999999999999998655 44567889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC--CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQG--NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~--~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ..+..|+..+.+..  ..++|+++|+||+|+...+++..+++.++++.++++++++||++|.||+++|+.|++.+.++
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~~~~~  167 (171)
T d2erxa1          90 EELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRR  167 (171)
T ss_dssp             HTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHTCCSS
T ss_pred             hcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHHHHHHHHh
Confidence            99999998886632  36789999999999988889999999999999999999999999999999999999865443

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.3e-35  Score=203.62  Aligned_cols=155  Identities=23%  Similarity=0.365  Sum_probs=135.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+.+.+...+.||++..+ ......++..+.+.+||++|++.|..++..+++++|++++|||+++++||
T Consensus        12 ~~vGKTSli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf   90 (191)
T d2ngra_          12 GAVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSF   90 (191)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCCcCCceeeec-ceeEeeCCceeeeeccccccchhhhhhhhhcccccceeecccccchHHHH
Confidence            69999999999999999999999988544 55567888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcc------------cccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEE------------KRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFY  147 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~  147 (181)
                      +++..|+........++.|+++++||+|+.+            ...+..+++..++++++ ++|++|||++|.||+++|+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~V~e~f~  170 (191)
T d2ngra_          91 ENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD  170 (191)
T ss_dssp             HHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCTTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeCCCCcCHHHHHH
Confidence            9998766555555457899999999999853            34588899999999875 7999999999999999999


Q ss_pred             HHHHHHHhh
Q 030225          148 EIAKRLAEV  156 (181)
Q Consensus       148 ~l~~~~~~~  156 (181)
                      .|+..+.+.
T Consensus       171 ~l~~~~~~~  179 (191)
T d2ngra_         171 EAILAALEP  179 (191)
T ss_dssp             HHHHHHTSC
T ss_pred             HHHHHHhcC
Confidence            999877554

>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=1.1e-35  Score=201.56  Aligned_cols=154  Identities=29%  Similarity=0.434  Sum_probs=135.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+.+.+.||++. ........++..+.+.+||++|++.+..+++.+++++|++|+|||+++++||
T Consensus        11 ~~vGKTsLi~~~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf   89 (177)
T d1kmqa_          11 GACGKTCLLIVNSKDQFPEVYVPTVFE-NYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSPDSL   89 (177)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCSEE-EEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCCcCCceee-eccccccccccceeeeccccCccchhcccchhhcccchhhhhhcccchhHHH
Confidence            689999999999999999999898874 4456677889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcc------------cccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEE------------KRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFY  147 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~  147 (181)
                      +++..|+..+.....++.|+++++||+|+..            .+.+..+++..++++++ ++|++|||++|.||+++|+
T Consensus        90 ~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAkt~~gi~e~F~  169 (177)
T d1kmqa_          90 ENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE  169 (177)
T ss_dssp             HHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCCCCcCHHHHHH
Confidence            9987766655554457899999999999853            24578889999999988 5899999999999999999


Q ss_pred             HHHHHHHh
Q 030225          148 EIAKRLAE  155 (181)
Q Consensus       148 ~l~~~~~~  155 (181)
                      .|++++.+
T Consensus       170 ~i~~~~l~  177 (177)
T d1kmqa_         170 MATRAALQ  177 (177)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHhC
Confidence            99998763

>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=9.4e-36  Score=200.88  Aligned_cols=156  Identities=29%  Similarity=0.529  Sum_probs=138.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|+.+.+...+.+|.+. .....+.+++..+.+.+||++|...+...+..+++++|++++|||+++++++
T Consensus        14 ~~vGKTsLi~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   92 (171)
T d2erya1          14 GGVGKSALTIQFIQSYFVTDYDPTIED-SYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSF   92 (171)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCTTCCE-EEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCcccCccccc-ceeeeeeecccccccccccccccccccccccccccccceEEEeeccccccch
Confidence            699999999999999999888888774 4566778899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +.+..|+..+... .....|+++++||+|+...+.+..+++..+++.++++|++|||++|.||+++|++|++.+.+.+
T Consensus        93 ~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l~~~i~k~~  170 (171)
T d2erya1          93 EEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRKFQ  170 (171)
T ss_dssp             HTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             hhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcCCCCcCHHHHHHHHHHHHHHhh
Confidence            9999999887664 3467899999999999888889999999999999999999999999999999999999987654

>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=1.1e-35  Score=202.94  Aligned_cols=153  Identities=22%  Similarity=0.389  Sum_probs=134.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+.+.+...+.+|++.. ....+...+..+.+.+||++|++.+..++..+++++|++++|||++++++|
T Consensus        18 ~~vGKTsLi~r~~~~~f~~~~~~Ti~~~-~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~~ilv~d~t~~~Sf   96 (185)
T d2atxa1          18 GAVGKTCLLMSYANDAFPEEYVPTVFDH-YAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASF   96 (185)
T ss_dssp             TTSSHHHHHHHHHHSSCCCSCCCSSCCC-EEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhhCCCCCcCCCceeee-eeEEEeeCCceEEeecccccccchhhhhhhhcccccceeeeccccchHHHH
Confidence            6999999999999999999999998754 456667888899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcc------------cccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEE------------KRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFY  147 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~  147 (181)
                      +++..|+....+...++.|+++|+||+|+.+            .+.+..+++.+++++++ +.|++|||++|.||+++|+
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~~E~SAk~~~gv~e~F~  176 (185)
T d2atxa1          97 QNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFD  176 (185)
T ss_dssp             HHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCTTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEEEEecCCCCcCHHHHHH
Confidence            9876555555444457899999999999853            35778899999999988 7899999999999999999


Q ss_pred             HHHHHHH
Q 030225          148 EIAKRLA  154 (181)
Q Consensus       148 ~l~~~~~  154 (181)
                      .+++++.
T Consensus       177 ~li~~il  183 (185)
T d2atxa1         177 EAIIAIL  183 (185)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHc
Confidence            9998874

>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=6.9e-37  Score=206.30  Aligned_cols=153  Identities=32%  Similarity=0.563  Sum_probs=134.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+...+.||++.++....+..++..+.+.+||++|+..+..++..+++++|++++|||++++++|
T Consensus        12 ~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf   91 (170)
T d1i2ma_          12 GGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTY   91 (170)
T ss_dssp             TTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEEEETTSGGGG
T ss_pred             CCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhhcccccccccc
Confidence            69999999999999999999999999999999998999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+..+.... ++.|+++|+||+|+......  .+...+++.++++|+++||++|.||+++|++|++.+...
T Consensus        92 ~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~--~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~~  164 (170)
T d1i2ma_          92 KNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  164 (170)
T ss_dssp             TTHHHHHHHHHHHH-CSCCEEEEEECCCCSCSCCT--TTSHHHHSSCSSEEEEEBTTTTBTTTHHHHHHHHHHHTC
T ss_pred             chhHHHHHHHhhcc-CCCceeeecchhhhhhhhhh--hHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHccC
Confidence            99999999987764 68999999999999765443  345577888899999999999999999999999988754

>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=1.5e-35  Score=198.91  Aligned_cols=155  Identities=41%  Similarity=0.734  Sum_probs=138.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|+.+.+.+.+.+|++.++....+.+++..+++.+||+||++.+..++..+++++|++++|||+++++++
T Consensus        11 ~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   90 (166)
T d1g16a_          11 SGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTF   90 (166)
T ss_dssp             TTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccCH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+..|+..+........|++++++|.|+.. .....+++..+++.+++++++|||++|+||+++|++|++.+.++
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~e~f~~l~~~i~~k  165 (166)
T d1g16a_          91 TNIKQWFKTVNEHANDEAQLLLVGNKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK  165 (166)
T ss_dssp             HTHHHHHHHHHHHSCTTCEEEEEEECTTCTT-CCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             HHHHhhhhhhhccccCcceeeeecchhhhhh-hhhhHHHHHHHHHhcCCeEEEECCCCCCCHHHHHHHHHHHHHhc
Confidence            9999999998888778889999999999754 66678889999999999999999999999999999999988764

>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=2.3e-35  Score=198.73  Aligned_cols=153  Identities=55%  Similarity=0.906  Sum_probs=142.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+.+.+.+|++.++....+..++..+.+.+||++|++.+..+++.++.++|++++|||++++.++
T Consensus        12 ~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   91 (170)
T d1ek0a_          12 AAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVVYDVTKPQSF   91 (170)
T ss_dssp             TTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEEEEeCCcccch
Confidence            69999999999999999999999999999889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcc---cccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEE---KRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~---~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +.+..|+..+........|+++++||+|+.+   .+.+..+++.+++++++++|+++||++|.||+++|.+|++.+
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gV~e~F~~i~~~i  167 (170)
T d1ek0a_          92 IKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             HHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             hhhhhhhhhhccccccccceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHHh
Confidence            9999999888787778899999999999864   367888999999999999999999999999999999997654

>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=9.4e-36  Score=203.44  Aligned_cols=156  Identities=29%  Similarity=0.560  Sum_probs=141.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECC----------eEEEEEEEeCCChhhhhccchhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNE----------VTIKFDIWDTAGQERYHSLAPMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~----------~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   70 (181)
                      ||||||||+++|+++.+...+.++.+.++....+..++          ..+++.+||++|++.+..++..+++++|++|+
T Consensus        14 ~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~~~~~~~~~~~i~   93 (186)
T d2f7sa1          14 SGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLL   93 (186)
T ss_dssp             TTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHHHHHHhcCCEEEE
Confidence            69999999999999999999989988887776665543          35789999999999999999999999999999


Q ss_pred             EEECCChhHHHHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHH
Q 030225           71 VYDITSMDSFERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        71 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l  149 (181)
                      |||++++.+++.+..|+..+.... ...+|+++|+||+|+.+.+++..+++.+++++++++++++||++|+||+++|++|
T Consensus        94 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l  173 (186)
T d2f7sa1          94 MFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETL  173 (186)
T ss_dssp             EEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTTTBTHHHHHHHH
T ss_pred             EEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            999999999999999998776543 3678999999999999889999999999999999999999999999999999999


Q ss_pred             HHHHHhh
Q 030225          150 AKRLAEV  156 (181)
Q Consensus       150 ~~~~~~~  156 (181)
                      ++.+.++
T Consensus       174 ~~~i~~k  180 (186)
T d2f7sa1         174 LDLIMKR  180 (186)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988765

>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=1.5e-35  Score=199.29  Aligned_cols=154  Identities=33%  Similarity=0.495  Sum_probs=136.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+++.+.+.+.||++..+... ...++..+.+.+||++|+..+. ....+++++|++++|||+++++++
T Consensus        11 ~~vGKTsli~r~~~~~f~~~~~pTi~~~~~~~-~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv~d~~~~~s~   88 (168)
T d2atva1          11 AGVGKSALVVRFLTKRFIWEYDPTLESTYRHQ-ATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLVYDITDRGSF   88 (168)
T ss_dssp             TTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEE-EEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCCccCCceecccccc-ccccccceEEEEeecccccccc-cchhhhcccccceeecccCCccch
Confidence            69999999999999999999999998876544 4578889999999999998764 456788999999999999999999


Q ss_pred             HHHHHHHHHHHH-hCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCC-HHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHN-VNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~-~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~~~~~l~~~~~~~  156 (181)
                      ..+..|+..... ....+.|+++|+||+|+...+.++.+++..++++++++|+++||++|.| |+++|..|++.+.++
T Consensus        89 ~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Saktg~gnV~e~F~~l~~~i~~~  166 (168)
T d2atva1          89 EEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRR  166 (168)
T ss_dssp             HTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHHHHHHHHH
T ss_pred             hhhhhhcccccccccccCcceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEccccCCcCHHHHHHHHHHHHHHh
Confidence            999988776654 3336899999999999988888999999999999999999999999985 999999999988765

>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=5.2e-35  Score=197.05  Aligned_cols=154  Identities=43%  Similarity=0.723  Sum_probs=134.5

Q ss_pred             CCCchhHHHHHHhhCCCCCc-cccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDF-QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|||||||+++|+.+.+.+. +.++++.++....+..++..+++.+||++|++.+..++..+++++|++++|||++++++
T Consensus        15 ~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~i~v~d~~~~~s   94 (170)
T d2g6ba1          15 SGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKAS   94 (170)
T ss_dssp             TTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHH
T ss_pred             CCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCceeEEEecCCcccc
Confidence            68999999999999987544 45667888888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           80 FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +..+..|+..+........|+++++||.|+.+...+..+++..+++.++++|+++||++|.||+++|++|++.+.
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~l~~~i~  169 (170)
T d2g6ba1          95 FDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELK  169 (170)
T ss_dssp             HHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhhhhccCCCceEEEEEeeechhhcccccHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHcC
Confidence            999999998887776678899999999999888899999999999999999999999999999999999998875

>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=1.5e-35  Score=199.08  Aligned_cols=153  Identities=35%  Similarity=0.589  Sum_probs=140.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|+++.+.+.+.++++. .......+++..+.+.+||++|+..+..++..+++++|++++|||+++++++
T Consensus        12 ~~vGKTsLi~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~   90 (167)
T d1kaoa_          12 GGVGKSALTVQFVTGTFIEKYDPTIED-FYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSF   90 (167)
T ss_dssp             TTSSHHHHHHHHHHSCCCSCCCTTCCE-EEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCccCCceee-eeeeeeecCcceEeeccccCCCccccccchHHHhhcccceeeeeeecchhhh
Confidence            699999999999999999999888874 4566778899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      ..+..|+..+.... .++.|+++|+||+|+...+.+..+++..+++.++++++++||++|.||+++|++|++++.
T Consensus        91 ~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~i~e~f~~i~~~i~  165 (167)
T d1kaoa_          91 QDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             HHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHHHHHHH
T ss_pred             hhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCcCHHHHHHHHHHHHc
Confidence            99999999887643 367899999999999888888999999999999999999999999999999999998764

>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=4.8e-35  Score=196.66  Aligned_cols=153  Identities=32%  Similarity=0.582  Sum_probs=139.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+.+.+.+.+.++++..+ ...+..++..+.+.+||++|+..+..+++.+++++|++|+|||++++++|
T Consensus        12 ~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf   90 (167)
T d1c1ya_          12 GGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTF   90 (167)
T ss_dssp             TTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEEEeccccccCcccccccccccccccceeEEeeeccchhhh
Confidence            68999999999999999999989988665 45567888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHHc-CCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQEN-GLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+.+. ..++.|+++|+||+|+.....+..+++..+++++ +++++++||++|+||+++|++|++.+.
T Consensus        91 ~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~~l~~~i~  166 (167)
T d1c1ya_          91 NDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             HTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             HhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcCHHHHHHHHHHHhc
Confidence            9999999988764 3467899999999999988888889999988875 689999999999999999999998764

>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=1.8e-34  Score=195.59  Aligned_cols=156  Identities=38%  Similarity=0.690  Sum_probs=144.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+...+.++.+.......+.+++..+.+.+||+||++.++.+++.+++++|++++|||++++.++
T Consensus        16 ~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~   95 (177)
T d1x3sa1          16 SGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTF   95 (177)
T ss_dssp             TTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCcccc
Confidence            69999999999999999999999999988888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      ..+..|+..+.... ....|+++++||.|.. .+.+...++..++++++++++++||++|+||+++|++|++.+.+..
T Consensus        96 ~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~-~~~v~~~~~~~~~~~~~~~~~e~Sa~tg~gv~e~f~~l~~~l~~~p  172 (177)
T d1x3sa1          96 VKLDNWLNELETYCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTP  172 (177)
T ss_dssp             HTHHHHHHHHTTCCSCSCCEEEEEEECTTSS-SCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHTSG
T ss_pred             ccchhhhhhhcccccccceeeEEEeeccccc-cccccHHHHHHHHHHCCCEEEEEeCCCCCCHHHHHHHHHHHHccCc
Confidence            99999999987644 3578899999999974 4778888999999999999999999999999999999999998763

>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=1.5e-34  Score=194.05  Aligned_cols=153  Identities=30%  Similarity=0.557  Sum_probs=138.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|+++.+...+.++++..+... +...+..+.+.+||++|.+.+...+..++++++++++|||++++.++
T Consensus        12 ~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv~d~~~~~s~   90 (166)
T d1ctqa_          12 GGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQ-VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF   90 (166)
T ss_dssp             TTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEE-EEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCCccCCccceeeccc-eeeeceeeeeeeeeccCccccccchhhhhhcccccceeecccccccH
Confidence            69999999999999999999999998776554 56788899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+.... .+++|+++++||+|+.. +.+..+++..+++.++++|+++||++|+||+++|++|++.+.+
T Consensus        91 ~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~i~~~i~~  165 (166)
T d1ctqa_          91 EDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             HTHHHHHHHHHHHHTCSSCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcCCCCCeEEEEeccccccc-ccccHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHHh
Confidence            99999999987753 36789999999999854 6677888999999999999999999999999999999998864

>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=4.6e-34  Score=192.67  Aligned_cols=155  Identities=28%  Similarity=0.363  Sum_probs=133.6

Q ss_pred             CCCchhHHHHHHhhCCCC-CccccceeeeEEEEEEEECCeEEEEEEEeCCC---hhhhhccchhhccCCcEEEEEEECCC
Q 030225            1 MGTGKTSLVLRFVKGQFF-DFQESTIGAAFFTQVLSLNEVTIKFDIWDTAG---QERYHSLAPMYYRGAAAAVVVYDITS   76 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G---~~~~~~~~~~~~~~~d~~i~v~d~~~   76 (181)
                      +|||||||+++|.+..+. ....++++.+.....+.+++..+.+.+||+++   ++++  ++..+++++|++|+|||+++
T Consensus        12 ~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~~~ilvfd~t~   89 (172)
T d2g3ya1          12 QGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITD   89 (172)
T ss_dssp             TTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCSEEEEEEETTC
T ss_pred             CCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccccccccccc--cccccccccceeeeeecccc
Confidence            689999999999987654 33456777788888889999999999999875   4444  56778999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           77 MDSFERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        77 ~~s~~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+++.+..|+..+... ..++.|+++++||+|+.+.+++..+++.++++.++++|+++||++|.||+++|++|++.+..
T Consensus        90 ~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~i~~~f~~l~~~i~~  169 (172)
T d2g3ya1          90 RASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRL  169 (172)
T ss_dssp             HHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             cchhhhhhhhhhhhhhccccCCceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeCCCCcCHHHHHHHHHHHHHH
Confidence            99999999999988764 34689999999999998888999999999999999999999999999999999999999876


Q ss_pred             hC
Q 030225          156 VN  157 (181)
Q Consensus       156 ~~  157 (181)
                      ++
T Consensus       170 rr  171 (172)
T d2g3ya1         170 RR  171 (172)
T ss_dssp             HC
T ss_pred             cc
Confidence            64

>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=4.6e-34  Score=194.52  Aligned_cols=154  Identities=25%  Similarity=0.422  Sum_probs=133.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|+.+.+...+.+|++.. ....+..++..+++.+||++|++.+..++..+++++|++++|||++++++|
T Consensus        14 ~~vGKTsli~~~~~~~f~~~~~~ti~~~-~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf   92 (183)
T d1mh1a_          14 GAVGKTCLLISYTTNAFPGEYIPTVFDN-YSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASF   92 (183)
T ss_dssp             TTSSHHHHHHHHHHSSCCSSCCCCSCCE-EEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCcccccceeec-eeeeeeccCcceEEEeecccccccchhhhhhcccccceeeeeeccchHHHH
Confidence            6999999999999999999999998754 455677899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcc------------cccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEE------------KRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFY  147 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~  147 (181)
                      +++..|+.........+.|+++|+||+|+..            .......++..++++++ ++|++|||++|.||+++|+
T Consensus        93 ~~i~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~SAk~~~~V~e~F~  172 (183)
T d1mh1a_          93 ENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFD  172 (183)
T ss_dssp             HHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEcCCCCCcCHHHHHH
Confidence            9987655544444457899999999999743            23466778888998887 7999999999999999999


Q ss_pred             HHHHHHHh
Q 030225          148 EIAKRLAE  155 (181)
Q Consensus       148 ~l~~~~~~  155 (181)
                      +|++.+.+
T Consensus       173 ~l~~~il~  180 (183)
T d1mh1a_         173 EAIRAVLC  180 (183)
T ss_dssp             HHHHHHSC
T ss_pred             HHHHHHcC
Confidence            99998863

>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=1.2e-33  Score=189.36  Aligned_cols=150  Identities=36%  Similarity=0.636  Sum_probs=136.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc-cchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS-LAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      +|||||||+++|+.+.+...+.++++..+.............+.+||++|...+.. .++.+++++|++|+|||++|+++
T Consensus        11 ~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s   90 (165)
T d1z06a1          11 SNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMAS   90 (165)
T ss_dssp             TTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceEEEEEeehhhh
Confidence            68999999999999999999999999999889999999999999999999876654 56788999999999999999999


Q ss_pred             HHHHHHHHHHHHHhC-CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCC---CCCHHHHHHHHH
Q 030225           80 FERAKKWVQELQRQG-NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKS---AHNVNELFYEIA  150 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~-~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~gi~~~~~~l~  150 (181)
                      |+.+..|+..+.+.. .++.|+++||||+|+.+.+++..+++.+++++++++++++||++   ++||+++|++|+
T Consensus        91 ~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~~~~~V~e~F~~lA  165 (165)
T d1z06a1          91 FHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLA  165 (165)
T ss_dssp             HHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHHHHHHC
T ss_pred             hhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEecccCCcCcCHHHHHHHhC
Confidence            999999999987753 46899999999999988889999999999999999999999997   569999999873

>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=9.2e-34  Score=192.32  Aligned_cols=154  Identities=25%  Similarity=0.410  Sum_probs=134.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|+.+.++..+.||++..+ ......++..+.+.+||++|++.+..+++.+++++|++++|||+++++||
T Consensus        11 ~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf   89 (179)
T d1m7ba_          11 SQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETL   89 (179)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCccCCceeecc-cccccccceEEeeccccccccccccccccchhhhhhhhheeeecccCCCH
Confidence            68999999999999999999989887544 45567888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCceEEEEEeCCCCcc------------cccCCHHHHHHHHHHcC-CeEEEEecCCCC-CHHHHH
Q 030225           81 ERAKKWVQELQRQGNPNLIMFLVANKVDLEE------------KRKVKNEEGELYAQENG-LSFLETSAKSAH-NVNELF  146 (181)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~-gi~~~~  146 (181)
                      +.+..|+........++.|+++||||+|+..            .+.+..+++..++++++ ..|+||||++|. |++++|
T Consensus        90 ~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk~~~n~i~~~F  169 (179)
T d1m7ba_          90 DSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF  169 (179)
T ss_dssp             HHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTTBHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCCCCCcCHHHHH
Confidence            9988766665554457899999999999853            35688899999999987 589999999998 599999


Q ss_pred             HHHHHHHHh
Q 030225          147 YEIAKRLAE  155 (181)
Q Consensus       147 ~~l~~~~~~  155 (181)
                      +.++..+..
T Consensus       170 ~~~~~~~l~  178 (179)
T d1m7ba_         170 HVATLACVN  178 (179)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHhc
Confidence            999998865

>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=4.8e-33  Score=188.00  Aligned_cols=154  Identities=34%  Similarity=0.621  Sum_probs=136.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|..+.+.+.+.+|++..+.......++..+.+.+||++|...+...+..++..+|+++++||.+++.++
T Consensus        15 ~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~s~   94 (174)
T d1wmsa_          15 GGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSF   94 (174)
T ss_dssp             TTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceEEEEEeeeccccc
Confidence            79999999999999999999999999998888889999999999999999998888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC----CCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQG----NPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~----~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +.+..|+..+....    ..+.|+++|+||+|+.+ +.+..+++..++++.+ ++|+++||++|+||+++|++|++.+.+
T Consensus        95 ~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~-~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~~~il~  173 (174)
T d1wmsa_          95 QNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA  173 (174)
T ss_dssp             HTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS-CSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             chhhhHHHHHHHHhccccCCCceEEEeccccchhh-ccCcHHHHHHHHHHcCCCeEEEEcCCCCcCHHHHHHHHHHHHhc
Confidence            99999998886632    25789999999999854 6788899999998875 899999999999999999999998864

>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=1.4e-33  Score=192.28  Aligned_cols=157  Identities=36%  Similarity=0.648  Sum_probs=140.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|+++.+...+.+|++.++....+...+..+.+.+||++|...+...+..++..+|++++|||.+++.++
T Consensus        11 ~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~   90 (184)
T d1vg8a_          11 SGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTF   90 (184)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEeecccchhhh
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhC----CCCceEEEEEeCCCCcccccCCHHHHHHHHHH-cCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225           81 ERAKKWVQELQRQG----NPNLIMFLVANKVDLEEKRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus        81 ~~~~~~~~~~~~~~----~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ..+..|+..+....    ..+.|+++|+||+|+.+ ..+..++...++.. .++++++|||++|.||+++|++|++.+.+
T Consensus        91 ~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~~~i~~  169 (184)
T d1vg8a_          91 KTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALK  169 (184)
T ss_dssp             HTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSC-CCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             hcchhhHHHHHHHhccccccCCCEEEEEEeecccc-cchhHHHHHHHHHHhcCCeEEEEcCCCCcCHHHHHHHHHHHHHh
Confidence            99999998887642    24679999999999865 55666666666654 57899999999999999999999998887


Q ss_pred             hCC
Q 030225          156 VNP  158 (181)
Q Consensus       156 ~~~  158 (181)
                      ++.
T Consensus       170 ~~~  172 (184)
T d1vg8a_         170 QET  172 (184)
T ss_dssp             HHH
T ss_pred             ccc
Confidence            644

>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=1.2e-33  Score=191.08  Aligned_cols=157  Identities=38%  Similarity=0.639  Sum_probs=124.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEEC-CeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLN-EVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      ||||||||+++|+++.+.+.+.++.+........... .....+.+||++|++.+..++..+++.++++++|||++++.+
T Consensus        11 ~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s   90 (175)
T d1ky3a_          11 SGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASS   90 (175)
T ss_dssp             TTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEEEEETTCHHH
T ss_pred             CCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEEEEeecccccc
Confidence            6999999999999999999888888877666665544 445678999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhC----CCCceEEEEEeCCCCcccc-cCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           80 FERAKKWVQELQRQG----NPNLIMFLVANKVDLEEKR-KVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        80 ~~~~~~~~~~~~~~~----~~~~p~ivi~nK~D~~~~~-~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      |+.+..|+..+....    ..+.|+++++||+|+.+.+ .+..+++.++++.++ ++++++||++|.||+++|++|++.+
T Consensus        91 ~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~gv~e~f~~l~~~~  170 (175)
T d1ky3a_          91 FENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSA  170 (175)
T ss_dssp             HHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             cchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEEeCCCCcCHHHHHHHHHHHH
Confidence            999999999887632    2578999999999997654 467788889998886 7899999999999999999999988


Q ss_pred             HhhC
Q 030225          154 AEVN  157 (181)
Q Consensus       154 ~~~~  157 (181)
                      .+++
T Consensus       171 l~~~  174 (175)
T d1ky3a_         171 LQQN  174 (175)
T ss_dssp             HHHH
T ss_pred             Hhcc
Confidence            7763

>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=1.3e-32  Score=184.20  Aligned_cols=146  Identities=23%  Similarity=0.322  Sum_probs=120.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++|.++.+.+.+.||++..+..  +..  .++.+.+||+||+..+...+..++..++++++|||+++.+++
T Consensus        11 ~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~   86 (164)
T d1zd9a1          11 QYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--ITK--GNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKI   86 (164)
T ss_dssp             TTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EEE--TTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHHcCCCCCcccccceeeeee--eee--eeEEEEEeeccccccccccccccccccchhhccccccccccc
Confidence            6999999999999999999888998866543  333  346889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHH-----HHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGEL-----YAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      .+...|+..+... ..++.|+++++||.|+.+...  ..+...     .+...+++++++||++|+|++++|+||++.
T Consensus        87 ~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~~~~l~~~  162 (164)
T d1zd9a1          87 EASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALD--EKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQH  162 (164)
T ss_dssp             HHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             chhhhhhhhhhhhhcccCCcEEEEEeccccchhhh--HHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHHHHHHHHHc
Confidence            9999888887664 347899999999999864322  222222     222345689999999999999999999874

>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=5.1e-31  Score=177.92  Aligned_cols=151  Identities=22%  Similarity=0.332  Sum_probs=126.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      +|||||||+++++++.+.. +.++.+..+ ...+.+++..+.+.+||++|+..+     .+++.+|++|+|||+++++||
T Consensus        14 ~~vGKTsLi~~~~~~~f~~-~~~t~~~~~-~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~ilVfd~~~~~Sf   86 (175)
T d2bmja1          14 ARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIFVFSLEDENSF   86 (175)
T ss_dssp             TTTTHHHHHHHHHHSCCCC-CCCSSCEEE-EEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCC-cCCccceeE-EEEeecCceEEEEEEeeccccccc-----ccccccceeEEEeecccchhh
Confidence            6899999999999999865 445655544 566788999999999999998754     378889999999999999999


Q ss_pred             HHHHHHHHHHHHhC---CCCceEEEEEeCCCCc--ccccCCHHHHHHHHHH-cCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQG---NPNLIMFLVANKVDLE--EKRKVKNEEGELYAQE-NGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~~---~~~~p~ivi~nK~D~~--~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      +.+..|+..+....   ....|+++|+||.|+.  ..+.+..+++..++++ ++++|++|||++|.|++++|..|++.+.
T Consensus        87 ~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~  166 (175)
T d2bmja1          87 QAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVV  166 (175)
T ss_dssp             HHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcCHHHHHHHHHHHHH
Confidence            99999998886542   3667999999988874  3566778888888655 4689999999999999999999999888


Q ss_pred             hhCC
Q 030225          155 EVNP  158 (181)
Q Consensus       155 ~~~~  158 (181)
                      ..++
T Consensus       167 ~~~~  170 (175)
T d2bmja1         167 TLRK  170 (175)
T ss_dssp             HHHH
T ss_pred             Hhhh
Confidence            7654

>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=8e-31  Score=175.48  Aligned_cols=148  Identities=18%  Similarity=0.214  Sum_probs=115.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.+..+. .+.+|.+....  .+..  ..+.+.+||+||++.++..+..++..++++++|||++|..++
T Consensus        11 ~~~GKTsLi~~l~~~~~~-~~~~t~~~~~~--~~~~--~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~   85 (165)
T d1ksha_          11 DNAGKTTILKKFNGEDVD-TISPTLGFNIK--TLEH--RGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRM   85 (165)
T ss_dssp             TTSSHHHHHHHHTTCCCS-SCCCCSSEEEE--EEEE--TTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHcCCCCC-cccceEeeeee--eccc--cccceeeeecCcchhhhhHHHhhhhhhhcceeeeecccchhH
Confidence            799999999999987654 45677774432  2333  446788999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHH-hCCCCceEEEEEeCCCCcccccCCHHHHHHH-----HHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELY-----AQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~-~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      .+...++..+.. ....+.|+++++||+|+.+....  .+....     +...++++++|||++|+|++++|+||++.+.
T Consensus        86 ~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~i~  163 (165)
T d1ksha_          86 QDCQRELQSLLVEERLAGATLLIFANKQDLPGALSC--NAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDIS  163 (165)
T ss_dssp             HHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCH--HHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccCCCceEEEEeccccccccCH--HHHHHHHHhhhhhcCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            888777766554 33478999999999999654433  222222     1223467999999999999999999999876


Q ss_pred             h
Q 030225          155 E  155 (181)
Q Consensus       155 ~  155 (181)
                      .
T Consensus       164 ~  164 (165)
T d1ksha_         164 S  164 (165)
T ss_dssp             T
T ss_pred             c
Confidence            5

>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=99.97  E-value=5e-32  Score=184.19  Aligned_cols=149  Identities=25%  Similarity=0.336  Sum_probs=113.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+.. ..+|.+.....  ...  ..+++.+||++|++.++.++..++.++|++++|+|++|+.++
T Consensus        26 ~~vGKTsLi~~l~~~~~~~-~~~t~~~~~~~--~~~--~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~  100 (182)
T d1moza_          26 DGAGKTTILYRLQIGEVVT-TKPTIGFNVET--LSY--KNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRM  100 (182)
T ss_dssp             TTSSHHHHHHHTCCSEEEE-ECSSTTCCEEE--EEE--TTEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTH
T ss_pred             CCCCHHHHHHHHhcCCCCc-cccccceEEEE--Eee--CCEEEEEEecccccccchhHHhhhccceeEEEEeeecccccc
Confidence            7999999999999877654 34666654332  233  346788999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHH-----HHHHcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGEL-----YAQENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      .+...|+..+... ...+.|+++++||+|+.+..  ...+...     .+..+++++++|||++|+||+++|+||++.+.
T Consensus       101 ~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~e~SA~~g~gv~e~~~~l~~~i~  178 (182)
T d1moza_         101 STASKELHLMLQEEELQDAALLVFANKQDQPGAL--SASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIK  178 (182)
T ss_dssp             HHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCC--CHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHhhccCCcceEEEEEeecccccc--CHHHHHHHHHHHHHhhCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            9998888776553 34679999999999985422  2233222     22334568999999999999999999999987


Q ss_pred             hh
Q 030225          155 EV  156 (181)
Q Consensus       155 ~~  156 (181)
                      ++
T Consensus       179 ~~  180 (182)
T d1moza_         179 EE  180 (182)
T ss_dssp             HH
T ss_pred             Hc
Confidence            75

>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=8.1e-31  Score=177.16  Aligned_cols=145  Identities=19%  Similarity=0.256  Sum_probs=113.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+...+ ++.+.+..  .+...  .+.+.+||++|++.+...+..+++.+|++++|||+++..++
T Consensus        25 ~~vGKSsLi~~l~~~~~~~~~-~~~~~~~~--~i~~~--~~~~~i~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~   99 (176)
T d1fzqa_          25 DNAGKTTLLKQLASEDISHIT-PTQGFNIK--SVQSQ--GFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRF   99 (176)
T ss_dssp             TTSSHHHHHHHHCCSCCEEEE-EETTEEEE--EEEET--TEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHhcCCCCcce-eeeeeeEE--EeccC--CeeEeEeeccccccchhHHHHHhhccceeEEeeccccccch
Confidence            799999999999998876533 55554433  33333  46788999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHH-----HHHHcCCeEEEEecCCCCCHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGEL-----YAQENGLSFLETSAKSAHNVNELFYEIAKR  152 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~  152 (181)
                      .++..|+..+... ...++|+++++||+|+.+..+  ..+..+     .+...++.++++||++|+|++++|+||++.
T Consensus       100 ~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~tg~gv~e~~~~l~~~  175 (176)
T d1fzqa_         100 EETGQELTELLEEEKLSCVPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKN  175 (176)
T ss_dssp             HHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             hhhhhhhhhhhhhhccCCCeEEEEEEecccccccc--HHHHHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHHHHhc
Confidence            9998888777553 336789999999999965332  222222     222345689999999999999999999874

>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=99.97  E-value=7.1e-31  Score=177.06  Aligned_cols=146  Identities=22%  Similarity=0.368  Sum_probs=113.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|..+.+... .+|.+...  .  ......+.+.+||+||...++..+..++.+++++++|+|+++.+++
T Consensus        21 ~~vGKTSli~rl~~~~~~~~-~~t~~~~~--~--~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~D~s~~~~~   95 (173)
T d1e0sa_          21 DAAGKTTILYKLKLGQSVTT-IPTVGFNV--E--TVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRI   95 (173)
T ss_dssp             TTSSHHHHHHHTTCCCCEEE-EEETTEEE--E--EEEETTEEEEEEEESCCGGGHHHHGGGTTTCCEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHhcCCCCCc-cceeeeeE--E--EeeccceeeEEecCCCcchhhhHHHhhhcccceEEEEEecccchhH
Confidence            79999999999998776543 35555433  2  2233446788999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHH-----HHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGE-----LYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~-----~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      ..+..|+...... .....|+++++||+|+.+...  ..+..     ..+...++.++++||++|+||+++|+||.+.+
T Consensus        96 ~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~e~~~~l~~~~  172 (173)
T d1e0sa_          96 DEARQELHRIINDREMRDAIILIFANKQDLPDAMK--PHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY  172 (173)
T ss_dssp             HHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhhhcccccceeeeeeeccccccccc--HHHHHHHHHHHHHHhCCCEEEEeeCCCCcCHHHHHHHHHHhc
Confidence            9998888777653 346899999999999854322  22222     22333456899999999999999999998753

>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=2.4e-28  Score=162.16  Aligned_cols=148  Identities=18%  Similarity=0.287  Sum_probs=115.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+...+..+...     ....+...+.+.+||++|...+...+..++..++++++++|.+++.++
T Consensus         9 ~~vGKSsLi~~l~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~   83 (160)
T d1r8sa_           9 DAAGKTTILYKLKLGEIVTTIPTIGFN-----VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERV   83 (160)
T ss_dssp             TTSSHHHHHHHHHHHCSSCCCCCSSCC-----EEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHhcCCCCccccceeeE-----EEEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEEEecChHHH
Confidence            799999999999998886655443322     223455667899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccC---CHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKV---KNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~---~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      ..+..|+..+... ....+|+++++||.|+.+....   .......+++..+++++++||++|+||+++|+||++++
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~~~l~~~l  160 (160)
T d1r8sa_          84 NEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL  160 (160)
T ss_dssp             HHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhhcccCceEEEEeecccccccccHHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHHHHHHhcC
Confidence            9988888777653 3367899999999998653221   11112223444567899999999999999999998763

>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=1.3e-25  Score=151.33  Aligned_cols=146  Identities=20%  Similarity=0.297  Sum_probs=107.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+.+.. ++.+...  .....  ..+++.+||++|.......+..++..++++++++|.++..++
T Consensus        24 ~~~GKSsLi~rl~~~~~~~~~-~~~~~~~--~~~~~--~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~   98 (177)
T d1zj6a1          24 DNAGKTTILYQFSMNEVVHTS-PTIGSNV--EEIVI--NNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERI   98 (177)
T ss_dssp             TTSSHHHHHHHHHTTSCEEEE-CCSCSSC--EEEEE--TTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTH
T ss_pred             CCCCHHHHHHHHhcCCCCccc-cccceeE--EEEee--cceEEEEeccccccccccchhhhhccceeeeeecccccccch
Confidence            799999999999998876533 4444322  22222  345788999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHH-----HHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELY-----AQENGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      .....+....... .....|+++++||+|+.....  ..+....     ++..+++++++||++|+|++++|+||++++
T Consensus        99 ~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi~e~~~~L~~~l  175 (177)
T d1zj6a1          99 SVTREELYKMLAHEDLRKAGLLIFANKQDVKECMT--VAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL  175 (177)
T ss_dssp             HHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhhhcccccceEEEEEEEcccccccCc--HHHHHHHHHHHhhHhcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            8877666655443 236899999999999854332  2222222     233456899999999999999999999875

>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=99.92  E-value=4.1e-25  Score=147.45  Aligned_cols=151  Identities=23%  Similarity=0.343  Sum_probs=114.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+.... ++.+...  .....  ..+.+.+||.+|...+...+...+...+++++++|+.+..++
T Consensus        14 ~~vGKSSLi~~~~~~~~~~~~-~~~~~~~--~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (169)
T d1upta_          14 DGAGKTTILYRLQVGEVVTTI-PTIGFNV--ETVTY--KNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRI   88 (169)
T ss_dssp             TTSSHHHHHHHHHHSSCCCCC-CCSSEEE--EEEEE--TTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTH
T ss_pred             CCCCHHHHHHHHhCCCCccee-cccceee--eeecc--CceEEEEeeccccccccccchhhhhhhhhhhhhhhhhhcchh
Confidence            799999999999999886543 5554322  22233  345778999999999999999999999999999999998888


Q ss_pred             HHHHHHHHHHHH-hCCCCceEEEEEeCCCCccccc---CCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225           81 ERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRK---VKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus        81 ~~~~~~~~~~~~-~~~~~~p~ivi~nK~D~~~~~~---~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      .....++..... ......|+++++||.|+.....   +....+..++...+++++++||++|+||+++|++|++.+.++
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~~~~l~~~l~~k  168 (169)
T d1upta_          89 GISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR  168 (169)
T ss_dssp             HHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             hhccchhhhhhhhhccccceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            877665555443 3346789999999999865332   111122223444567999999999999999999999988655

>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=99.92  E-value=2.2e-25  Score=150.56  Aligned_cols=148  Identities=18%  Similarity=0.124  Sum_probs=97.4

Q ss_pred             CCCchhHHHHHHhhCCCCCcc-ccceeeeEEEEEEEECCeEEEEEEEeCCChhhh--------hccchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ-ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY--------HSLAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~~~~~d~~i~v   71 (181)
                      ||||||||+|+|++....... .+..............+  ..+.+||+||....        ......++.++|++++|
T Consensus        14 ~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~il~v   91 (178)
T d1wf3a1          14 PNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWV   91 (178)
T ss_dssp             TTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEE
T ss_pred             CCCCHHHHHHHHhCCCceeecccCCcccccccceeeeee--eeeeecccccccccccccchhcccccccccccccceeee
Confidence            799999999999987643321 12222222222333333  46789999996332        22234457899999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHHHHH
Q 030225           72 YDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      +|++++..... ..|.+.+... ..+.|+++|+||+|+....   .+....+.+..+ ..++++||++|.|+++++++|+
T Consensus        92 ~D~~~~~~~~~-~~i~~~l~~~-~~~~piilv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~iSA~~~~gi~~L~~~i~  166 (178)
T d1wf3a1          92 VDLRHPPTPED-ELVARALKPL-VGKVPILLVGNKLDAAKYP---EEAMKAYHELLPEAEPRMLSALDERQVAELKADLL  166 (178)
T ss_dssp             EETTSCCCHHH-HHHHHHHGGG-TTTSCEEEEEECGGGCSSH---HHHHHHHHHTSTTSEEEECCTTCHHHHHHHHHHHH
T ss_pred             echhhhhcccc-cchhhheecc-ccchhhhhhhcccccccCH---HHHHHHHHhhcccCceEEEecCCCCCHHHHHHHHH
Confidence            99987543322 3344444333 4578999999999985422   223344444444 5789999999999999999998


Q ss_pred             HHHHh
Q 030225          151 KRLAE  155 (181)
Q Consensus       151 ~~~~~  155 (181)
                      +.+.+
T Consensus       167 ~~lpe  171 (178)
T d1wf3a1         167 ALMPE  171 (178)
T ss_dssp             TTCCB
T ss_pred             HhCCC
Confidence            76644

>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=8e-24  Score=140.44  Aligned_cols=144  Identities=17%  Similarity=0.186  Sum_probs=110.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+.. +.|+.+....    ......+.+.+||++|...+...+..++..++++++++|.++..++
T Consensus         9 ~nvGKSSLln~l~~~~~~~-~~~t~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~   83 (166)
T d2qtvb1           9 DNAGKTTLLHMLKNDRLAT-LQPTWHPTSE----ELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERF   83 (166)
T ss_dssp             TTSSHHHHHHHHHHSCCCC-CCCCCSCEEE----EECCTTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHhCCCCCe-eeceeeEeEE----EeccCCeeEEEEeeccchhhhhhHhhhhhheeeeeeeccccchhhh
Confidence            7999999999999988764 4566664443    2334445678999999999999999999999999999999999998


Q ss_pred             HHHHHHHHHHHHh-CCCCceEEEEEeCCCCcccccCCHHHHHHHH------------HHcCCeEEEEecCCCCCHHHHHH
Q 030225           81 ERAKKWVQELQRQ-GNPNLIMFLVANKVDLEEKRKVKNEEGELYA------------QENGLSFLETSAKSAHNVNELFY  147 (181)
Q Consensus        81 ~~~~~~~~~~~~~-~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~------------~~~~~~~~~~Sa~~~~gi~~~~~  147 (181)
                      .....|+...... ...+.|++++++|.|+....  ...+.....            ...++.+++|||++|+||+++|+
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gv~e~~~  161 (166)
T d2qtvb1          84 DEARVELDALFNIAELKDVPFVILGNKIDAPNAV--SEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQ  161 (166)
T ss_dssp             HHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCC--CHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTBSHHHHHH
T ss_pred             hhhhHHHHhhhhhhccCCceEEEEeccccccccC--CHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCCCHHHHHH
Confidence            8887777666553 34788999999999985422  222222211            12235789999999999999999


Q ss_pred             HHHH
Q 030225          148 EIAK  151 (181)
Q Consensus       148 ~l~~  151 (181)
                      ||.+
T Consensus       162 ~l~~  165 (166)
T d2qtvb1         162 WLSQ  165 (166)
T ss_dssp             HHTT
T ss_pred             HHhC
Confidence            9964

>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=99.91  E-value=2.4e-25  Score=152.59  Aligned_cols=150  Identities=14%  Similarity=0.145  Sum_probs=116.0

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChh--
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMD--   78 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~--   78 (181)
                      +|||||||+++|..+.+.  +.||+|.++.    .+....+.+.+||++|++.+...|..++..+++++++||.++..  
T Consensus        11 ~~vGKTsll~r~~~~~~~--~~pTiG~~~~----~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   84 (200)
T d2bcjq2          11 GESGKSTFIKQMRIIHGS--GVPTTGIIEY----PFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQV   84 (200)
T ss_dssp             TTSSHHHHHHHHHHHTSS--CCCCCSCEEE----EEECSSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEEEEGGGGGCB
T ss_pred             CCCCHHHHHHHHhCCCCC--CCceeeEEEE----EEeccceeeeeccccccccccccccccccccceeeEeeeccchhhh
Confidence            589999999999988763  5699996643    23445567889999999999999999999999999999998754  


Q ss_pred             ---------HHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccc----------------cCCHHHHHHHHHH-------
Q 030225           79 ---------SFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR----------------KVKNEEGELYAQE-------  126 (181)
Q Consensus        79 ---------s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~----------------~~~~~~~~~~~~~-------  126 (181)
                               .++....|...+......+.|+++++||.|+.+..                +........+...       
T Consensus        85 ~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~  164 (200)
T d2bcjq2          85 LVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNP  164 (200)
T ss_dssp             CSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHHHHHHHHTTCS
T ss_pred             hhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHHHHHHHHHhcc
Confidence                     34556677777766666889999999999974321                2223333333322       


Q ss_pred             ---cCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          127 ---NGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       127 ---~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                         +.+.++++||++|+||+++|+.|.+.+.+.
T Consensus       165 ~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~~  197 (200)
T d2bcjq2         165 DSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  197 (200)
T ss_dssp             CTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             cCCCceEEEEeEEEcCHhHHHHHHHHHHHHHHH
Confidence               234678999999999999999999988765

>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=7.2e-24  Score=143.22  Aligned_cols=155  Identities=17%  Similarity=0.074  Sum_probs=100.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhh----hhcc---chhhccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQER----YHSL---APMYYRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~---~~~~~~~~d~~i~v~d   73 (181)
                      ||||||||+|+|++........+..+...... ........++.+||+||...    ....   ....+..++++++++|
T Consensus        10 ~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~~~~~~d   88 (180)
T d1udxa2          10 PNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLG-VVEVSEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLD   88 (180)
T ss_dssp             GGGCHHHHHHHHCSSCCEECCCTTCSSCCEEE-EEECSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCCceeccCCCceeeeec-eeeecCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhhhhhhcc
Confidence            79999999999997665433323322222222 22333344678999999432    1111   2244678999999999


Q ss_pred             CCCh--hHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           74 ITSM--DSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        74 ~~~~--~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      ....  ..+.....|+...... ..++|+++++||+|+.+..+  .++..+.....+.+++.+||++|+|++++++.|.+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~-~~~~p~iiv~NK~D~~~~~~--~~~~~~~~~~~~~~~~~iSA~tg~gid~L~~~i~~  165 (180)
T d1udxa2          89 AADEPLKTLETLRKEVGAYDPA-LLRRPSLVALNKVDLLEEEA--VKALADALAREGLAVLPVSALTGAGLPALKEALHA  165 (180)
T ss_dssp             TTSCHHHHHHHHHHHHHHHCHH-HHHSCEEEEEECCTTSCHHH--HHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHHH
T ss_pred             cccccccchhhhhhhhhccccc-cchhhhhhhhhhhhhhhHHH--HHHHHHHHHhcCCeEEEEEcCCCCCHHHHHHHHHH
Confidence            8653  2333333444332221 13579999999999965433  23344555567899999999999999999999999


Q ss_pred             HHHhhCCC
Q 030225          152 RLAEVNPS  159 (181)
Q Consensus       152 ~~~~~~~~  159 (181)
                      .+....++
T Consensus       166 ~l~~~~~~  173 (180)
T d1udxa2         166 LVRSTPPP  173 (180)
T ss_dssp             HHHTSCCC
T ss_pred             HHhhcCCC
Confidence            88765543

>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=99.91  E-value=1.2e-24  Score=148.56  Aligned_cols=147  Identities=19%  Similarity=0.199  Sum_probs=106.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      .|||||||+++|....+++     ++.    .+..++...+++.+||++|++.+..++..++++++++++|+|+++.+++
T Consensus        11 ~~vGKTsl~~r~~~~~~~t-----~~~----~~~~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v~d~~~~~~~   81 (195)
T d1svsa1          11 GESGKSTIVKQMKIIHEAG-----TGI----VETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLV   81 (195)
T ss_dssp             TTSSHHHHHHHHHHHHSCC-----CSE----EEEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCB
T ss_pred             CCCCHHHHHHHHhhCCCCC-----ccE----EEEEEEeeeeeeeeeccccccccccchhhcccCCceeeeEEeecccchH
Confidence            4899999999998776643     332    1223444556788999999999999999999999999999999987755


Q ss_pred             -----------HHHHHHHHHHHHhCCCCceEEEEEeCCCCccc---------------ccCCHHHHHHHHH-H-------
Q 030225           81 -----------ERAKKWVQELQRQGNPNLIMFLVANKVDLEEK---------------RKVKNEEGELYAQ-E-------  126 (181)
Q Consensus        81 -----------~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~---------------~~~~~~~~~~~~~-~-------  126 (181)
                                 +....|...+........|+++++||+|+...               ......+...+.. .       
T Consensus        82 ~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~  161 (195)
T d1svsa1          82 LAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKR  161 (195)
T ss_dssp             CSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHHHHHHHHTTCSC
T ss_pred             HHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHHHHHHHHHHhcc
Confidence                       22334444444444578899999999996321               1112222222111 1       


Q ss_pred             ---cCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          127 ---NGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       127 ---~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                         ..+.++++||+++.||+++|+.+.+.+.++
T Consensus       162 ~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~~  194 (195)
T d1svsa1         162 KDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKN  194 (195)
T ss_dssp             TTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             cCCCcceeEEEEeECCHhHHHHHHHHHHHHHhc
Confidence               235678999999999999999999988765

>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=99.89  E-value=2.6e-24  Score=142.84  Aligned_cols=142  Identities=20%  Similarity=0.232  Sum_probs=100.0

Q ss_pred             CCCchhHHHHHHhhCCCCC-ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh--------ccchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFD-FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH--------SLAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~~~~~~d~~i~v   71 (181)
                      ||||||||+|+|++.+... ...+....+.....+...+  ..+.+||++|.....        .....++.++|+++++
T Consensus        10 ~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~d~~i~~   87 (161)
T d2gj8a1          10 PNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG--MPLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFM   87 (161)
T ss_dssp             TTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT--EEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEE
T ss_pred             CCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccC--ceeeeccccccccccccchhHHHHHHHHHHHhcccccee
Confidence            7999999999999876542 2223333333333444454  467799999953221        1234557899999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           72 YDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      +|..+...++....|...+... ..+.|+++|+||+|+.......       .+..+.+++++||++|+||++++++|.+
T Consensus        88 ~d~~~~~~~~~~~~~~~~~~~~-~~~~~iilv~NK~Dl~~~~~~~-------~~~~~~~~~~iSAk~~~gi~~L~~~l~~  159 (161)
T d2gj8a1          88 VDGTTTDAVDPAEIWPEFIARL-PAKLPITVVRNKADITGETLGM-------SEVNGHALIRLSARTGEGVDVLRNHLKQ  159 (161)
T ss_dssp             EETTTCCCCSHHHHCHHHHHHS-CTTCCEEEEEECHHHHCCCCEE-------EEETTEEEEECCTTTCTTHHHHHHHHHH
T ss_pred             eccccccchhhhhhhhhhhhhc-ccccceeeccchhhhhhhHHHH-------HHhCCCcEEEEECCCCCCHHHHHHHHHh
Confidence            9999887777777665555554 3678999999999985432211       1123578999999999999999999987


Q ss_pred             H
Q 030225          152 R  152 (181)
Q Consensus       152 ~  152 (181)
                      .
T Consensus       160 ~  160 (161)
T d2gj8a1         160 S  160 (161)
T ss_dssp             H
T ss_pred             h
Confidence            5

>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=99.89  E-value=4e-23  Score=141.54  Aligned_cols=149  Identities=15%  Similarity=0.188  Sum_probs=103.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChh--
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMD--   78 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~--   78 (181)
                      +|||||||+++|.   +.+.+.||+|...  ..+..  ..+.+.+||++|++.++..+..++++++++++++|.++..  
T Consensus        11 ~~vGKTsll~r~~---f~~~~~pTiG~~~--~~~~~--~~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (200)
T d1zcba2          11 GESGKSTFLKQMR---IIHGQDPTKGIHE--YDFEI--KNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQV   83 (200)
T ss_dssp             TTSSHHHHHHHHH---HHHSCCCCSSEEE--EEEEE--TTEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCE
T ss_pred             CCCCHHHHHHHHh---cCCCCCCeeeeEE--EEEee--eeeeeeeecccceeeecccccccccccceeEEEEEcCCccee
Confidence            6999999999994   5566789998543  23333  4567889999999999999999999999999999999743  


Q ss_pred             --------HHHHHHHHHHHHHH-hCCCCceEEEEEeCCCCccc----------------ccCCHHHHHHHHHH-------
Q 030225           79 --------SFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEK----------------RKVKNEEGELYAQE-------  126 (181)
Q Consensus        79 --------s~~~~~~~~~~~~~-~~~~~~p~ivi~nK~D~~~~----------------~~~~~~~~~~~~~~-------  126 (181)
                              .+.+...++..+.. ....+.|+++++||+|+.+.                .....+.+..+...       
T Consensus        84 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~f~~~~~  163 (200)
T d1zcba2          84 LMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRR  163 (200)
T ss_dssp             ETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCS
T ss_pred             eeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHHHHHHHHHhcc
Confidence                    34555555565544 33468999999999997431                11223344443333       


Q ss_pred             ----cCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          127 ----NGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       127 ----~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                          ..+.++++||+++.||+++|+.+.+.+.++
T Consensus       164 ~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~~  197 (200)
T d1zcba2         164 DQQQRPLYHHFTTAINTENIRLVFRDVKDTILHD  197 (200)
T ss_dssp             SCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHHH
Confidence                125677899999999999999998887664

>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=6.4e-23  Score=137.43  Aligned_cols=151  Identities=19%  Similarity=0.107  Sum_probs=93.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh---------hhhccchhhccCCcEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE---------RYHSLAPMYYRGAAAAVVV   71 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~~~~~d~~i~v   71 (181)
                      ||||||||+++|++...... ....+.+.......++.....+.+||++|..         .+......++..+|+++++
T Consensus         9 ~n~GKSsLi~~L~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~ad~i~~~   87 (171)
T d1mkya1           9 PNVGKSTLFNKLVKKKKAIV-EDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFV   87 (171)
T ss_dssp             TTSSHHHHHHHHHC---------------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEE
T ss_pred             CCCCHHHHHHHHhCCCccee-cccCceeeccccccccccccccccccccceeeeeccccccccccccccccccCcEEEEe
Confidence            79999999999997654321 1222333323333344444578899999932         1222334557899999999


Q ss_pred             EECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHH
Q 030225           72 YDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAK  151 (181)
Q Consensus        72 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  151 (181)
                      .|.+..... ....++..+...   ++|+++++||+|+.+..+  .+...++.+.....++++||++|.|+++++++|.+
T Consensus        88 ~~~~~~~~~-~~~~~~~~l~~~---~~pviiv~NK~Dl~~~~~--~~~~~~~~~~~~~~~i~iSAk~g~gid~L~~~i~~  161 (171)
T d1mkya1          88 VDGKRGITK-EDESLADFLRKS---TVDTILVANKAENLREFE--REVKPELYSLGFGEPIPVSAEHNINLDTMLETIIK  161 (171)
T ss_dssp             EETTTCCCH-HHHHHHHHHHHH---TCCEEEEEESCCSHHHHH--HHTHHHHGGGSSCSCEECBTTTTBSHHHHHHHHHH
T ss_pred             ecccccccc-cccccccccccc---cccccccchhhhhhhhhh--hHHHHHHHhcCCCCeEEEecCCCCCHHHHHHHHHH
Confidence            998764333 234455555443   578999999999864221  11222222223356789999999999999999999


Q ss_pred             HHHhhCC
Q 030225          152 RLAEVNP  158 (181)
Q Consensus       152 ~~~~~~~  158 (181)
                      .+.++..
T Consensus       162 ~l~e~~~  168 (171)
T d1mkya1         162 KLEEKGL  168 (171)
T ss_dssp             HHHHTTC
T ss_pred             hCCCCCC
Confidence            9887654

>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=99.88  E-value=1.6e-22  Score=136.63  Aligned_cols=146  Identities=17%  Similarity=0.186  Sum_probs=102.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF   80 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   80 (181)
                      ||||||||+++|.++.+.... ++.+....  .+..++.  .+.+||+.+...+...+..++...+++++++|+++...+
T Consensus        22 ~~vGKTsLl~~l~~~~~~~~~-~~~~~~~~--~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~d~~~~   96 (186)
T d1f6ba_          22 DNAGKTTLLHMLKDDRLGQHV-PTLHPTSE--ELTIAGM--TFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERL   96 (186)
T ss_dssp             TTSSHHHHHHHHSCC-------CCCCCSCE--EEEETTE--EEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHhCCCCccee-ccccccee--EEEeccc--ccccccccchhhhhhHHhhhhcccceeeeeeeccCccch
Confidence            799999999999988876543 55444432  3344544  567999999999888999999999999999999999888


Q ss_pred             HHHHHHHHHHHH-hCCCCceEEEEEeCCCCcccccCCHHHHHHHHHH-----------------cCCeEEEEecCCCCCH
Q 030225           81 ERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE-----------------NGLSFLETSAKSAHNV  142 (181)
Q Consensus        81 ~~~~~~~~~~~~-~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~Sa~~~~gi  142 (181)
                      .....++..... ....+.|+++++||.|+....  ...+.......                 .++++++|||++|+||
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gi  174 (186)
T d1f6ba_          97 LESKEELDSLMTDETIANVPILILGNKIDRPEAI--SEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGY  174 (186)
T ss_dssp             HHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTCC--CHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTTTBSH
T ss_pred             HHHHHHHHHhhcccccCCCceEEEEeccCccccC--CHHHHHHHHhhcccchhhhhhhHHHhhcCCCEEEEEeCCCCCCH
Confidence            887665555444 334789999999999985432  23333332221                 2346899999999999


Q ss_pred             HHHHHHHHHHH
Q 030225          143 NELFYEIAKRL  153 (181)
Q Consensus       143 ~~~~~~l~~~~  153 (181)
                      +++|+||++.+
T Consensus       175 ~e~~~~l~~~i  185 (186)
T d1f6ba_         175 GEGFRWMAQYI  185 (186)
T ss_dssp             HHHHHHHHTTC
T ss_pred             HHHHHHHHHhh
Confidence            99999998753

>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=99.87  E-value=2.7e-22  Score=135.33  Aligned_cols=152  Identities=17%  Similarity=0.122  Sum_probs=96.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccce-----eeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTI-----GAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDIT   75 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~-----~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   75 (181)
                      ||+|||||+|+|++.........+.     |.++......+......+.++|++|+..|.......+..+|++++++|++
T Consensus        14 ~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~l~~~d~~ilv~d~~   93 (179)
T d1wb1a4          14 IDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAK   93 (179)
T ss_dssp             TTSSHHHHHHHHHTTC--------------------CCCEEEETTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETT
T ss_pred             CCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCCccccccccccccccccchhhhhhhccccccccccc
Confidence            7999999999999754332221111     11111111111223356789999999999888888999999999999999


Q ss_pred             ChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCC--HHHHHHHHHHc----CCeEEEEecCCCCCHHHHHHHH
Q 030225           76 SMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK--NEEGELYAQEN----GLSFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        76 ~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~--~~~~~~~~~~~----~~~~~~~Sa~~~~gi~~~~~~l  149 (181)
                      ++..... ...+..+..   .+.|+++++||+|+.+..+..  ......+....    +.+++++||++|+|++++++.|
T Consensus        94 ~g~~~~~-~~~~~~~~~---~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iSA~~g~gi~eL~~~I  169 (179)
T d1wb1a4          94 EGPKTQT-GEHMLILDH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLI  169 (179)
T ss_dssp             TCSCHHH-HHHHHHHHH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHH
T ss_pred             cccchhh-hhhhhhhhh---cCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEEccCCcCHHHHHHHH
Confidence            7543222 223333333   468999999999986533211  11122222221    3589999999999999999999


Q ss_pred             HHHHHhh
Q 030225          150 AKRLAEV  156 (181)
Q Consensus       150 ~~~~~~~  156 (181)
                      .+.+.+.
T Consensus       170 ~~~l~~~  176 (179)
T d1wb1a4         170 ITTLNNA  176 (179)
T ss_dssp             HHHHHHS
T ss_pred             HhcCCcc
Confidence            9887653

>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=99.86  E-value=1.2e-21  Score=132.47  Aligned_cols=144  Identities=19%  Similarity=0.183  Sum_probs=91.2

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh---------------hhhccchhhccCC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE---------------RYHSLAPMYYRGA   65 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------------~~~~~~~~~~~~~   65 (181)
                      ||||||||+|+|++........+  |++.....+...+    +.+||+||..               .+.......++.+
T Consensus         9 ~nvGKSsLin~l~~~~~~~~~~~--g~T~~~~~~~~~~----~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (184)
T d2cxxa1           9 SNVGKSTLIYRLTGKKVRRGKRP--GVTRKIIEIEWKN----HKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNI   82 (184)
T ss_dssp             TTSSHHHHHHHHHSCCCSSSSST--TCTTSCEEEEETT----EEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGC
T ss_pred             CCCCHHHHHHHHhCCCceeeCCC--CEeeccccccccc----ceecccCCceeccccccccccccchhhhhhhhhccccc
Confidence            79999999999998776443333  2333333333332    4689999941               1112233446789


Q ss_pred             cEEEEEEECCChhHHHHH----------HHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC-------
Q 030225           66 AAAVVVYDITSMDSFERA----------KKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG-------  128 (181)
Q Consensus        66 d~~i~v~d~~~~~s~~~~----------~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~-------  128 (181)
                      |++++|+|.++.......          ...++.+..   .+.|+++|+||+|+....+   .....+....+       
T Consensus        83 d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~---~~~p~iiv~NK~D~~~~~~---~~~~~~~~~~~~~~~~~~  156 (184)
T d2cxxa1          83 DVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE---LDIPTIVAVNKLDKIKNVQ---EVINFLAEKFEVPLSEID  156 (184)
T ss_dssp             CEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH---TTCCEEEEEECGGGCSCHH---HHHHHHHHHHTCCGGGHH
T ss_pred             chheeeeeccccchhhhhhhhccccHHHHHHHHHHHH---cCCCEEEEEeeeehhhhHH---HHHHHHHHHhcccccccC
Confidence            999999998754332211          112233322   3689999999999754322   11222222222       


Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          129 LSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       129 ~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ..++++||++|+|+++++++|.+.+.++
T Consensus       157 ~~~~~vSA~~g~gi~~L~~~i~~~l~e~  184 (184)
T d2cxxa1         157 KVFIPISAKFGDNIERLKNRIFEVIRER  184 (184)
T ss_dssp             HHEEECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHccCC
Confidence            2478999999999999999999988764

>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=99.86  E-value=1.1e-20  Score=130.06  Aligned_cols=110  Identities=21%  Similarity=0.293  Sum_probs=82.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh-ccchhhccCCcEEEEEEECCChhH
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH-SLAPMYYRGAAAAVVVYDITSMDS   79 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~~i~v~d~~~~~s   79 (181)
                      ||||||||+++|.++.+...+ ++++.++....+. ++..+.+.+||++|++.++ ..+..++..++++++|+|+++..+
T Consensus         9 ~~~GKTsLl~~l~~~~~~~~~-~t~~~~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~D~~d~~~   86 (207)
T d2fh5b1           9 CDSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKVN-NNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQR   86 (207)
T ss_dssp             TTSSHHHHHHHHHHSCCCCBC-CCCSCEEEEEECS-STTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHH
T ss_pred             CCCCHHHHHHHHHcCCCCccc-CCeeEEEEEEEEe-eeeeeeeeeeeccccccccchhhhhhhhhccccceEEEcccccc
Confidence            799999999999998887654 6777665544432 4456788999999998775 567888899999999999999766


Q ss_pred             -HHHHHHHHHHHHH---hCCCCceEEEEEeCCCCccc
Q 030225           80 -FERAKKWVQELQR---QGNPNLIMFLVANKVDLEEK  112 (181)
Q Consensus        80 -~~~~~~~~~~~~~---~~~~~~p~ivi~nK~D~~~~  112 (181)
                       +.+...|+..+..   .....+|++|++||+|+.+.
T Consensus        87 ~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a  123 (207)
T d2fh5b1          87 EVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMA  123 (207)
T ss_dssp             HHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTC
T ss_pred             cHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCC
Confidence             3445555544432   22356899999999999653

>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=99.85  E-value=3.7e-22  Score=132.13  Aligned_cols=141  Identities=22%  Similarity=0.185  Sum_probs=90.7

Q ss_pred             CCCchhHHHHHHhhCCCCCc-cccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh---------ccchhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDF-QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH---------SLAPMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~~~~~~~d~~i~   70 (181)
                      ||||||||+|+|++...... ..+..........+...+  ..+.+||+||.....         ......+..+|++++
T Consensus         9 ~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~ii~   86 (160)
T d1xzpa2           9 PNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLF   86 (160)
T ss_dssp             HHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEE
T ss_pred             CCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCC--eeEEeccccccccCCccHHHHHHHHHHHHHHHhCCEEEE
Confidence            68999999999998654322 122222222233344444  467799999942110         111223678999999


Q ss_pred             EEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHH
Q 030225           71 VYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIA  150 (181)
Q Consensus        71 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~  150 (181)
                      |+|++++.......-+ ..+     ...++++++||.|+.+...  .++... ....+.+++++||++|+|+++++++|.
T Consensus        87 v~d~~~~~~~~~~~~~-~~~-----~~~~~i~~~~k~d~~~~~~--~~~~~~-~~~~~~~~~~vSA~~g~gi~~L~~~I~  157 (160)
T d1xzpa2          87 VLDASSPLDEEDRKIL-ERI-----KNKRYLVVINKVDVVEKIN--EEEIKN-KLGTDRHMVKISALKGEGLEKLEESIY  157 (160)
T ss_dssp             EEETTSCCCHHHHHHH-HHH-----TTSSEEEEEEECSSCCCCC--HHHHHH-HHTCSTTEEEEEGGGTCCHHHHHHHHH
T ss_pred             EEeCCCCcchhhhhhh-hhc-----ccccceeeeeeccccchhh--hHHHHH-HhCCCCcEEEEECCCCCCHHHHHHHHH
Confidence            9999987664433222 122     4568999999999865332  233222 223457899999999999999999986


Q ss_pred             HH
Q 030225          151 KR  152 (181)
Q Consensus       151 ~~  152 (181)
                      ++
T Consensus       158 ke  159 (160)
T d1xzpa2         158 RE  159 (160)
T ss_dssp             HH
T ss_pred             hc
Confidence            63

>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=99.85  E-value=1.8e-21  Score=135.82  Aligned_cols=153  Identities=18%  Similarity=0.136  Sum_probs=97.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEE----------------EECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVL----------------SLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~----------------~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      |++|||||+++|++..........+.........                .++....++.++||||+..|.......+..
T Consensus        14 ~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~~~~~~~~~   93 (227)
T d1g7sa4          14 VDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTLRKRGGAL   93 (227)
T ss_dssp             TTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTSBCSSSBS
T ss_pred             CCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccccchhcccc
Confidence            6899999999998754322111111111111111                123344578899999999998888888899


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCH--------------------HHHHHHH
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKN--------------------EEGELYA  124 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~--------------------~~~~~~~  124 (181)
                      +|++|+|+|+.++-... ....+..+..   .+.|+++++||+|+........                    .......
T Consensus        94 ~D~~ilVvda~~g~~~~-~~~~~~~~~~---~~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~  169 (227)
T d1g7sa4          94 ADLAILIVDINEGFKPQ-TQEALNILRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDTKVYELV  169 (227)
T ss_dssp             CSEEEEEEETTTCCCHH-HHHHHHHHHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHHHHHHHHHH
T ss_pred             cceEEEEEecccCcccc-hhHHHHHhhc---CCCeEEEEEECccCCCchhhhhhHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            99999999998643222 2333444433   3679999999999864322110                    0000111


Q ss_pred             H---Hc---------------CCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225          125 Q---EN---------------GLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       125 ~---~~---------------~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      .   +.               .++++.+||++|.|++++++.|.....+..
T Consensus       170 ~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~~~  220 (227)
T d1g7sa4         170 GKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYL  220 (227)
T ss_dssp             HHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHHHH
Confidence            1   00               136899999999999999999988776543

>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=99.83  E-value=2.6e-21  Score=134.57  Aligned_cols=148  Identities=15%  Similarity=0.195  Sum_probs=105.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChh--
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMD--   78 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~--   78 (181)
                      +|||||||+++|..+.    ..||+|...  ..+.+++  +.+.+||++|+..++..|..++.+++++++++|.++.+  
T Consensus        15 ~~vGKTsll~~~~~~~----~~pTiG~~~--~~~~~~~--~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~v~d~s~~~~~   86 (221)
T d1azta2          15 GESGKSTIVKQMRILH----VVLTSGIFE--TKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMV   86 (221)
T ss_dssp             TTSSHHHHHHHHHHHH----CCCCCSCEE--EEEEETT--EEEEEEECCCSTTTTTGGGGGCTTCSEEEEEEETTGGGCB
T ss_pred             CCCCHHHHHHHHhcCC----cCCCCCeEE--EEEEECc--EEEEEEecCccceeccchhhhcccccceEEEEEccccccc
Confidence            5899999999997664    347888543  3344444  67889999999999999999999999999999998632  


Q ss_pred             --------HHHHHHHHHHHHHH-hCCCCceEEEEEeCCCCccccc----C--------------------------CHHH
Q 030225           79 --------SFERAKKWVQELQR-QGNPNLIMFLVANKVDLEEKRK----V--------------------------KNEE  119 (181)
Q Consensus        79 --------s~~~~~~~~~~~~~-~~~~~~p~ivi~nK~D~~~~~~----~--------------------------~~~~  119 (181)
                              .+.+...++..+.. ....+.|++|++||+|+.+.+.    .                          ...+
T Consensus        87 ~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~~~~g~~~~~~~  166 (221)
T d1azta2          87 IREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTR  166 (221)
T ss_dssp             CTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCCCCTTCCHHHHH
T ss_pred             cccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCcccccccCCCchhHHH
Confidence                    34444444454444 3346899999999999843210    0                          1122


Q ss_pred             HHHHHHH-------------cCCeEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          120 GELYAQE-------------NGLSFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       120 ~~~~~~~-------------~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +..+++.             ..+..+++||.++.+|+.+|+.+.+.|.+.
T Consensus       167 a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~~  216 (221)
T d1azta2         167 AKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQRM  216 (221)
T ss_dssp             HHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHHH
Confidence            3332221             123467899999999999999988777654

>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=99.83  E-value=1e-21  Score=133.10  Aligned_cols=150  Identities=19%  Similarity=0.162  Sum_probs=91.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc----cch---hhccCCcEEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS----LAP---MYYRGAAAAVVVYD   73 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----~~~---~~~~~~d~~i~v~d   73 (181)
                      ||||||||+|+|.+........+..+.+.........+. ..+.+||+||......    +..   ..+..++.++++++
T Consensus        10 ~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~~~-~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~i~~~v~   88 (185)
T d1lnza2          10 PSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDG-RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVID   88 (185)
T ss_dssp             TTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSS-CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEecCC-cEEEEecCCCcccCchHHHHHHHHHHHHHHHhhhhhheee
Confidence            799999999999886653332222222222223333322 2577999999632221    111   22456888988888


Q ss_pred             CCChhHHHH---HHHHHHHHHH--hCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHc--CCeEEEEecCCCCCHHHHH
Q 030225           74 ITSMDSFER---AKKWVQELQR--QGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQEN--GLSFLETSAKSAHNVNELF  146 (181)
Q Consensus        74 ~~~~~s~~~---~~~~~~~~~~--~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~gi~~~~  146 (181)
                      ....+....   ...+......  ....++|+++++||+|+.+..    +....+....  +.+++.+||++|.|+++++
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~----~~~~~~~~~~~~~~~v~~iSA~~g~Gi~~L~  164 (185)
T d1lnza2          89 MSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAVTREGLRELL  164 (185)
T ss_dssp             SSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSCCSSTTHHHH
T ss_pred             ecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHH----HHHHHHHHHhccCCcEEEEECCCCCCHHHHH
Confidence            765432221   1111111111  223568999999999986532    2223333333  5789999999999999999


Q ss_pred             HHHHHHHHh
Q 030225          147 YEIAKRLAE  155 (181)
Q Consensus       147 ~~l~~~~~~  155 (181)
                      ++|.+.+.+
T Consensus       165 ~~i~~~L~~  173 (185)
T d1lnza2         165 FEVANQLEN  173 (185)
T ss_dssp             HHHHHHHTS
T ss_pred             HHHHHhhhh
Confidence            999998754

>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=99.83  E-value=1.5e-20  Score=127.25  Aligned_cols=149  Identities=19%  Similarity=0.130  Sum_probs=93.2

Q ss_pred             CCCchhHHHHHHhhCCCCC-ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhh------------ccchhhccCCcE
Q 030225            1 MGTGKTSLVLRFVKGQFFD-FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYH------------SLAPMYYRGAAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------------~~~~~~~~~~d~   67 (181)
                      ||||||||+|+|++..... ...+..........+..++.  .+.++|+||.....            ......++.+|+
T Consensus        17 ~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dv   94 (186)
T d1mkya2          17 PNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADV   94 (186)
T ss_dssp             TTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTE--EEEESSCSCC-----------CCSCCHHHHHHHHHCSE
T ss_pred             CCCCHHHHHHHHHCCCcceeecccccccccceeeeccCCc--eeeeeccCCccccccccccccccchhHHHHHHHhcCCE
Confidence            6999999999999866432 11122222222223444544  56799999964322            122344678999


Q ss_pred             EEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHc-----CCeEEEEecCCCCCH
Q 030225           68 AVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQEN-----GLSFLETSAKSAHNV  142 (181)
Q Consensus        68 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~Sa~~~~gi  142 (181)
                      +++|+|++.+.. .....++..+..   .+.|+++++||+|+....+....+......+.     ..+++++||++|.|+
T Consensus        95 ii~v~d~~~~~~-~~~~~~~~~~~~---~~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSa~~g~gv  170 (186)
T d1mkya2          95 VVIVLDATQGIT-RQDQRMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNI  170 (186)
T ss_dssp             EEEEEETTTCCC-HHHHHHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTBSH
T ss_pred             EEEeecccccch-hhHHHHHHHHHH---cCCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeEEEEeCCCCCCH
Confidence            999999975432 222334444433   36799999999998655544444444333332     257999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 030225          143 NELFYEIAKRLAE  155 (181)
Q Consensus       143 ~~~~~~l~~~~~~  155 (181)
                      ++++++|.+.+..
T Consensus       171 ~~L~~~i~~~~~~  183 (186)
T d1mkya2         171 DRMIDAMNLAYAS  183 (186)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999776654

>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=99.80  E-value=3.8e-19  Score=121.20  Aligned_cols=112  Identities=15%  Similarity=0.151  Sum_probs=79.7

Q ss_pred             EEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCC--H
Q 030225           40 TIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK--N  117 (181)
Q Consensus        40 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~--~  117 (181)
                      ..++.++|+||+..|.......+..+|++++|+|+.++.........+..+...  ..++++++.||+|+.+.....  .
T Consensus        77 ~~~~~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~--~~~~iiv~inK~D~~d~~~~~~~~  154 (195)
T d1kk1a3          77 VRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQII--GQKNIIIAQNKIELVDKEKALENY  154 (195)
T ss_dssp             EEEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH--TCCCEEEEEECGGGSCHHHHHHHH
T ss_pred             ceeEeeeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHh--cCccceeeeecccchhhHHHHHHH
Confidence            467899999999999988888888999999999998753333334444444444  234688889999986533211  1


Q ss_pred             HHHHHHHHHc---CCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225          118 EEGELYAQEN---GLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       118 ~~~~~~~~~~---~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      .....+....   +++++++||++|+|++++++.+.+.+
T Consensus       155 ~~~~~~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         155 RQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFI  193 (195)
T ss_dssp             HHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHHhccccCCCCeEEEEECCCCCCHHHHHHHHHHHC
Confidence            2223333333   26899999999999999999887643

>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=99.79  E-value=3.9e-19  Score=121.12  Aligned_cols=145  Identities=17%  Similarity=0.162  Sum_probs=83.8

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh-------------hhhccchhhccCCcE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE-------------RYHSLAPMYYRGAAA   67 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~-------------~~~~~~~~~~~~~d~   67 (181)
                      ||||||||+|+|++...........+.+...........   +.+.|++|..             .+.......+..+|+
T Consensus        32 ~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (195)
T d1svia_          32 SNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDE---LHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKA  108 (195)
T ss_dssp             TTSSHHHHHHHHHTC-------------CCEEEEEETTT---EEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEE
T ss_pred             CCCCHHHHHHHhcCCCceEEeecccceeeeccccccccc---ceEEEEEeeccccccccccchhhhHHhhhhccccchhh
Confidence            799999999999986543333333333333333333332   3356665521             111122344567899


Q ss_pred             EEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHH----cCCeEEEEecCCCCCHH
Q 030225           68 AVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE----NGLSFLETSAKSAHNVN  143 (181)
Q Consensus        68 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~----~~~~~~~~Sa~~~~gi~  143 (181)
                      +++++|++.+.. .....+++.+...   ++|+++++||+|+....+.. +....+.+.    .+.+++.+||++|.|++
T Consensus       109 vi~viD~~~~~~-~~~~~~~~~l~~~---~~piivv~NK~D~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~SA~~~~gi~  183 (195)
T d1svia_         109 VVQIVDLRHAPS-NDDVQMYEFLKYY---GIPVIVIATKADKIPKGKWD-KHAKVVRQTLNIDPEDELILFSSETKKGKD  183 (195)
T ss_dssp             EEEEEETTSCCC-HHHHHHHHHHHHT---TCCEEEEEECGGGSCGGGHH-HHHHHHHHHHTCCTTSEEEECCTTTCTTHH
T ss_pred             hhhhhhcccccc-ccccccccccccc---cCcceechhhccccCHHHHH-HHHHHHHHHhcccCCCCEEEEeCCCCCCHH
Confidence            999999875422 1223444444443   67899999999985433221 222222222    34578999999999999


Q ss_pred             HHHHHHHHHH
Q 030225          144 ELFYEIAKRL  153 (181)
Q Consensus       144 ~~~~~l~~~~  153 (181)
                      +++++|.+.+
T Consensus       184 el~~~i~~~l  193 (195)
T d1svia_         184 EAWGAIKKMI  193 (195)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998876

>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=99.78  E-value=6.5e-19  Score=118.28  Aligned_cols=149  Identities=16%  Similarity=0.128  Sum_probs=92.4

Q ss_pred             CCCchhHHHHHHhhCCCCCccc-cceeeeEEEEEEEECCeEEEEEEEeCCChhh---------hhccchhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQE-STIGAAFFTQVLSLNEVTIKFDIWDTAGQER---------YHSLAPMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~~~~d~~i~   70 (181)
                      ||||||||+|+|++.+...... ++............+..  .+..||.+|...         ...........++++++
T Consensus        14 ~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~   91 (179)
T d1egaa1          14 PNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAY--QAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIF   91 (179)
T ss_dssp             SSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETTE--EEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCCc--eeEeecCCCceecchhhhhhhhhhccccchhhcceeEE
Confidence            7999999999999876543222 22222222222223333  455788887421         12223344567889999


Q ss_pred             EEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC-CeEEEEecCCCCCHHHHHHHH
Q 030225           71 VYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG-LSFLETSAKSAHNVNELFYEI  149 (181)
Q Consensus        71 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~~~~~l  149 (181)
                      +.|..+....  ...+...+..   ...|.++++||.|+.............+....+ .+++++||++|.|+++++++|
T Consensus        92 ~~d~~~~~~~--~~~~~~~l~~---~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i  166 (179)
T d1egaa1          92 VVEGTRWTPD--DEMVLNKLRE---GKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIV  166 (179)
T ss_dssp             EEETTCCCHH--HHHHHHHHHS---SSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTTHHHHHHHH
T ss_pred             EEecCccchh--HHHHHHHhhh---ccCceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCEEEEeCcCCCCHHHHHHHH
Confidence            9998754332  2222233322   356788889999986654433344455555555 589999999999999999999


Q ss_pred             HHHHHhh
Q 030225          150 AKRLAEV  156 (181)
Q Consensus       150 ~~~~~~~  156 (181)
                      .+.+.+.
T Consensus       167 ~~~lpe~  173 (179)
T d1egaa1         167 RKHLPEA  173 (179)
T ss_dssp             HTTCCBC
T ss_pred             HHhCCCC
Confidence            8876544

>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=99.77  E-value=3.9e-18  Score=116.99  Aligned_cols=111  Identities=15%  Similarity=0.137  Sum_probs=77.9

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCC--HH
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK--NE  118 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~--~~  118 (181)
                      .++.++|+|||..|.......+..+|++|+|+|+.++-.-...+..+..+...  .-.|+++++||+|+.+..+..  ..
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~--~i~~iIV~vNK~Dl~~~~~~~~~~~  163 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII--GVKNLIIVQNKVDVVSKEEALSQYR  163 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT--TCCCEEEEEECGGGSCHHHHHHHHH
T ss_pred             EEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHc--CCceeeeccccCCCccchHHHHHHH
Confidence            46899999999999888888889999999999998752122233344444333  235789999999996533211  11


Q ss_pred             HHHHHHHHc---CCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225          119 EGELYAQEN---GLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       119 ~~~~~~~~~---~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      +...+....   +++++.+||++|.||+++++.|.+.+
T Consensus       164 ~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~i  201 (205)
T d2qn6a3         164 QIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYI  201 (205)
T ss_dssp             HHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhhC
Confidence            122222222   36899999999999999999887754

>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=99.76  E-value=4.2e-19  Score=120.72  Aligned_cols=147  Identities=14%  Similarity=0.102  Sum_probs=99.2

Q ss_pred             CCCchhHHHHHHhhC----------------CCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKG----------------QFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~----------------~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      +++|||||+++|+..                ....+..  -|.++......+......+.++|+||+..|.......+..
T Consensus        12 vd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~--rgiTi~~~~~~~~~~~~~~~~iDtPGh~~f~~~~~~~~~~   89 (196)
T d1d2ea3          12 VDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERA--RGITINAAHVEYSTAARHYAHTDCPGHADYVKNMITGTAP   89 (196)
T ss_dssp             TTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEE--TTEEEECEEEEEECSSCEEEEEECSSHHHHHHHHHHTSSC
T ss_pred             CCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcC--CCccCCcceEEEEeceeeEEeecCcchHHHHHHHHHHHhh
Confidence            478999999999741                1111222  2334444444555555678899999999999888888999


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccC---CHHHHHHHHHHcC-----CeEEEEec
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKV---KNEEGELYAQENG-----LSFLETSA  136 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~---~~~~~~~~~~~~~-----~~~~~~Sa  136 (181)
                      +|++++|+|+.++- ....++.+..+...  ..+|+++++||+|+....+.   ...+...+....+     ++++.+||
T Consensus        90 aD~allVVda~~G~-~~QT~~~~~~a~~~--~~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~pii~iSa  166 (196)
T d1d2ea3          90 LDGCILVVAANDGP-MPQTREHLLLARQI--GVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSA  166 (196)
T ss_dssp             CSEEEEEEETTTCS-CHHHHHHHHHHHHT--TCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCH
T ss_pred             cCeEEEEEEcCCCC-chhHHHHHHHHHHh--cCCcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCCcccCEEEEEEc
Confidence            99999999998643 23344555555454  34678999999998643221   1223444444444     57999999


Q ss_pred             CCC----------CCHHHHHHHHHHH
Q 030225          137 KSA----------HNVNELFYEIAKR  152 (181)
Q Consensus       137 ~~~----------~gi~~~~~~l~~~  152 (181)
                      ++|          .|+.++++.|.+.
T Consensus       167 ~~g~~~~~~~~~~~~~~~Lldai~~~  192 (196)
T d1d2ea3         167 LCALEQRDPELGLKSVQKLLDAVDTY  192 (196)
T ss_dssp             HHHHTTCCTTTTHHHHHHHHHHHHHH
T ss_pred             cccccccCcccccCCHHHHHHHHHhh
Confidence            988          4788888777553

>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=99.66  E-value=4.3e-17  Score=111.49  Aligned_cols=133  Identities=14%  Similarity=0.094  Sum_probs=83.5

Q ss_pred             CCCchhHHHHHHhhCCC------CCccccc---------eeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccCC
Q 030225            1 MGTGKTSLVLRFVKGQF------FDFQEST---------IGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGA   65 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~------~~~~~~t---------~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~   65 (181)
                      +++|||||+++|+....      ......+         -|+++......+...+.++.|+||||+..|.......+..+
T Consensus        12 vd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~~~i~iiDtPGh~df~~~~~~~~~~a   91 (204)
T d2c78a3          12 VDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGAAQM   91 (204)
T ss_dssp             TTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGHHHHHHHHTTC
T ss_pred             CCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCCeEEEEEeCCCchhhHHHHHHHHHHC
Confidence            58999999999973211      0000000         13333344444555556788999999999999888889999


Q ss_pred             cEEEEEEECCChhHHHHHHHHHHHHHHhCCCCce-EEEEEeCCCCcccccC---CHHHHHHHHHHcC-----CeEEEEec
Q 030225           66 AAAVVVYDITSMDSFERAKKWVQELQRQGNPNLI-MFLVANKVDLEEKRKV---KNEEGELYAQENG-----LSFLETSA  136 (181)
Q Consensus        66 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivi~nK~D~~~~~~~---~~~~~~~~~~~~~-----~~~~~~Sa  136 (181)
                      |++|+|+|+.++-..+ ..+.+..+...   +.| +++++||+|+.+..+.   ...+...+....+     ++++.+|+
T Consensus        92 D~avlVvda~~Gv~~q-t~~~~~~~~~~---gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~i~~i~~sa  167 (204)
T d2c78a3          92 DGAILVVSAADGPMPQ-TREHILLARQV---GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSA  167 (204)
T ss_dssp             SSEEEEEETTTCCCHH-HHHHHHHHHHT---TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCH
T ss_pred             CEEEEEEECCCCCcHH-HHHHHHHHHHc---CCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhcCCCcccceeeeeec
Confidence            9999999998754433 34444555444   444 7778999998553221   1123333444333     46788887


Q ss_pred             C
Q 030225          137 K  137 (181)
Q Consensus       137 ~  137 (181)
                      .
T Consensus       168 ~  168 (204)
T d2c78a3         168 L  168 (204)
T ss_dssp             H
T ss_pred             h
Confidence            5

>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=99.65  E-value=4.4e-16  Score=110.33  Aligned_cols=105  Identities=18%  Similarity=0.167  Sum_probs=71.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccc----------------eeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhccC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQEST----------------IGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRG   64 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t----------------~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   64 (181)
                      .++|||||+.+++...........                -+.++......+.+...+++|+||||+..|.......++.
T Consensus        15 ~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~~~~n~iDtPG~~dF~~e~~~~l~~   94 (276)
T d2bv3a2          15 IDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDAPGHVDFTIEVERSMRV   94 (276)
T ss_dssp             TTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETTEEEEEECCCSSSSCSTTHHHHHHH
T ss_pred             CCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCCeEEEEecCCchhhhHHHHHHHHHh
Confidence            479999999999742221111000                0111222223333445578999999999999999999999


Q ss_pred             CcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCC
Q 030225           65 AAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL  109 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~  109 (181)
                      +|+.|+|+|+.++-.....+-| +....   .+.|.++++||.|.
T Consensus        95 ~D~avlVvda~~Gv~~~T~~~w-~~a~~---~~lP~i~fINKmDr  135 (276)
T d2bv3a2          95 LDGAIVVFDSSQGVEPQSETVW-RQAEK---YKVPRIAFANKMDK  135 (276)
T ss_dssp             CCEEEEEEETTTSSCHHHHHHH-HHHHT---TTCCEEEEEECTTS
T ss_pred             hhheEEeccccCCcchhHHHHH-HHHHH---cCCCEEEEEecccc
Confidence            9999999999976444433333 44433   47899999999996

>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=99.65  E-value=5.5e-16  Score=107.05  Aligned_cols=102  Identities=20%  Similarity=0.140  Sum_probs=70.2

Q ss_pred             eEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCH-
Q 030225           39 VTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKN-  117 (181)
Q Consensus        39 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~-  117 (181)
                      .+.++.++|+|||..|.......+..+|++|+|+|+.++-.- .....+..+...  .-+.++++.||+|+.+..+... 
T Consensus        87 ~~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~-Qt~e~~~~~~~~--gv~~iiv~vNK~D~~~~~~~~~~  163 (222)
T d1zunb3          87 AKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQT-QTRRHSYIASLL--GIKHIVVAINKMDLNGFDERVFE  163 (222)
T ss_dssp             SSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCH-HHHHHHHHHHHT--TCCEEEEEEECTTTTTSCHHHHH
T ss_pred             cceEEEEEeccchhhhhhhhccccccCceEEEEeccccCccc-chHHHHHHHHHc--CCCEEEEEEEccccccccceehh
Confidence            345788999999999998888889999999999999864322 233333333333  1234788899999975332211 


Q ss_pred             ---HHHHHHHHHcC-----CeEEEEecCCCCCHH
Q 030225          118 ---EEGELYAQENG-----LSFLETSAKSAHNVN  143 (181)
Q Consensus       118 ---~~~~~~~~~~~-----~~~~~~Sa~~~~gi~  143 (181)
                         .+...++...+     ++++++||++|+|+.
T Consensus       164 ~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~  197 (222)
T d1zunb3         164 SIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVV  197 (222)
T ss_dssp             HHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTS
T ss_pred             hhHHHHhhhhHhhccCCCceEEEEEEcccCccCC
Confidence               23344555554     367899999999884

>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=99.65  E-value=8.2e-17  Score=110.36  Aligned_cols=105  Identities=13%  Similarity=0.130  Sum_probs=72.5

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhh----ccCCcEEEEEEECCC
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMY----YRGAAAAVVVYDITS   76 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~----~~~~d~~i~v~d~~~   76 (181)
                      ||||||||+|+|+++.+.+    +++.+....  .+...+..+.+||+||+..+...+..+    ...++.+++++|+.+
T Consensus        12 ~n~GKTSLln~l~~~~~~~----~tt~~~~~~--~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~~i~~vd~~~   85 (209)
T d1nrjb_          12 QNSGKTSLLTLLTTDSVRP----TVVSQEPLS--AADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTV   85 (209)
T ss_dssp             TTSSHHHHHHHHHHSSCCC----BCCCSSCEE--ETTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTS
T ss_pred             CCCCHHHHHHHHhCCCCCC----eEEecceEE--EEEeCCeEEEEEecccccchhhHHHHHHHHHhhhccccceEEEEec
Confidence            7999999999999987653    333222222  344445567899999998765554433    455689999999775


Q ss_pred             -hhHHHHHHHHHHH----HHHhCCCCceEEEEEeCCCCcc
Q 030225           77 -MDSFERAKKWVQE----LQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        77 -~~s~~~~~~~~~~----~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                       ..+++....|+..    +......++|+++++||+|+.+
T Consensus        86 ~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~  125 (209)
T d1nrjb_          86 DPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFT  125 (209)
T ss_dssp             CTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTT
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccc
Confidence             4555555555543    3344457899999999999864

>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=99.61  E-value=3e-15  Score=105.72  Aligned_cols=103  Identities=17%  Similarity=0.071  Sum_probs=70.2

Q ss_pred             CCCchhHHHHHHhhCCCCCcc------------------ccceeeeEEEEEEEECCeEEEEEEEeCCChhhhhccchhhc
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQ------------------ESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHSLAPMYY   62 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~------------------~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   62 (181)
                      .++|||||+.+|+........                  ...++.......+..+  ..+++++||||+.+|.......+
T Consensus        11 ~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~--~~~~n~iDtPGh~dF~~e~~~al   88 (267)
T d2dy1a2          11 AGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFR--GHRVFLLDAPGYGDFVGEIRGAL   88 (267)
T ss_dssp             TTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEET--TEEEEEEECCCSGGGHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeeccccccc--ccceeEEccCchhhhhhhhhhhh
Confidence            479999999999642211110                  1112222223333334  45788999999999999999999


Q ss_pred             cCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCC
Q 030225           63 RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL  109 (181)
Q Consensus        63 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~  109 (181)
                      +.+|++|+|+|+.++-..... ..++.+.+.   +.|.++++||.|.
T Consensus        89 ~~~D~avlvvda~~Gv~~~t~-~~~~~~~~~---~~p~~i~iNk~D~  131 (267)
T d2dy1a2          89 EAADAALVAVSAEAGVQVGTE-RAWTVAERL---GLPRMVVVTKLDK  131 (267)
T ss_dssp             HHCSEEEEEEETTTCSCHHHH-HHHHHHHHT---TCCEEEEEECGGG
T ss_pred             cccCceEEEeeccCCccchhH-HHHHhhhhc---ccccccccccccc
Confidence            999999999999975443333 333444443   6899999999996

>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=99.59  E-value=4e-15  Score=99.91  Aligned_cols=149  Identities=12%  Similarity=0.037  Sum_probs=74.6

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChhhh-------h---ccchhhccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY-------H---SLAPMYYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~---~~~~~~~~~~d~~i~   70 (181)
                      ||||||||+|+|.+...........+................+..++.++....       .   ..........+.++.
T Consensus        25 ~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (188)
T d1puia_          25 SNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGYAEVPEEMKRKWQRALGEYLEKRQSLQGLVV  104 (188)
T ss_dssp             TTSSHHHHHTTTCCC-------------CCEEEEEEETTEEEEECCCCC------CCHHHHHHHHHHHHHHCTTEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCceEeecccccceeeccceecccccceeeeecccccchhhhhhhhhhhhhhhhhhhhhheeEEEE
Confidence            799999999999987654433333222222333333333333333333321111       1   111122334455666


Q ss_pred             EEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCC--HHHHHHHHHHc--CCeEEEEecCCCCCHHHHH
Q 030225           71 VYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK--NEEGELYAQEN--GLSFLETSAKSAHNVNELF  146 (181)
Q Consensus        71 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~--~~~~~~~~~~~--~~~~~~~Sa~~~~gi~~~~  146 (181)
                      +.+..... ......++..+..   ...++++++||.|+.+.....  .+...+.....  ..+++.+||++|.||++++
T Consensus       105 ~~~~~~~~-~~~~~~~~~~~~~---~~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~~~~~~~~~i~vSA~~g~Gid~L~  180 (188)
T d1puia_         105 LMDIRHPL-KDLDQQMIEWAVD---SNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLR  180 (188)
T ss_dssp             EEETTSCC-CHHHHHHHHHHHH---TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEEEEECBTTTTBSHHHHH
T ss_pred             eecccccc-hhHHHHHHHHhhh---ccccccchhhhhhccCHHHHHHHHHHHHHHHHhhCCCCcEEEEeCCCCCCHHHHH
Confidence            66655432 2222334444433   356899999999986532211  11222222222  2478999999999999999


Q ss_pred             HHHHHHH
Q 030225          147 YEIAKRL  153 (181)
Q Consensus       147 ~~l~~~~  153 (181)
                      +.|.+-+
T Consensus       181 ~~i~~~~  187 (188)
T d1puia_         181 QKLDTWF  187 (188)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9987643

>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=99.55  E-value=2.4e-15  Score=105.35  Aligned_cols=108  Identities=15%  Similarity=0.147  Sum_probs=61.1

Q ss_pred             CeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH------HHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           38 EVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF------ERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        38 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~------~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      ....++.+.|+|||..|..........+|++++|+|+.++.--      ......+..+...  .-.++++++||+|+..
T Consensus        99 ~~~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~--~i~~iiv~iNKmD~~~  176 (245)
T d1r5ba3          99 TEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQ--GINHLVVVINKMDEPS  176 (245)
T ss_dssp             CSSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHT--TCSSEEEEEECTTSTT
T ss_pred             cccceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHc--CCCeEEEEEEcCCCCc
Confidence            3445789999999999999888888999999999999864211      1233344334333  2234788899999853


Q ss_pred             ccc--CC----HHHHHHHHHHc-------CCeEEEEecCCCCCHHHHHH
Q 030225          112 KRK--VK----NEEGELYAQEN-------GLSFLETSAKSAHNVNELFY  147 (181)
Q Consensus       112 ~~~--~~----~~~~~~~~~~~-------~~~~~~~Sa~~~~gi~~~~~  147 (181)
                      ...  ..    ..+...+..+.       .++++++||++|+||.++++
T Consensus       177 ~~~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         177 VQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             cchhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchh
Confidence            211  11    11222232322       25789999999999977543

>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=99.54  E-value=6.7e-15  Score=102.63  Aligned_cols=107  Identities=14%  Similarity=0.161  Sum_probs=72.8

Q ss_pred             EECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHH-------HHHHHHHHHHHhCCCCceEEEEEeCC
Q 030225           35 SLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFE-------RAKKWVQELQRQGNPNLIMFLVANKV  107 (181)
Q Consensus        35 ~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~-------~~~~~~~~~~~~~~~~~p~ivi~nK~  107 (181)
                      .+...+.++.|+|+|||..|......-+..+|++|+|+|+.... ++       .....+......  .-+++++++||+
T Consensus        78 ~~~~~~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~-~e~g~~~~~QT~eh~~~~~~~--gv~~iiv~iNKm  154 (239)
T d1f60a3          78 KFETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGE-FEAGISKDGQTREHALLAFTL--GVRQLIVAVNKM  154 (239)
T ss_dssp             EEECSSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHH-HHHHTCTTSHHHHHHHHHHHT--TCCEEEEEEECG
T ss_pred             EeccCCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCc-cccccCchHhHHHHHHHHHHc--CCCeEEEEEECC
Confidence            34444568899999999999999888999999999999998542 21       233333333333  223578889999


Q ss_pred             CCcccccCC----HHHHHHHHHHcC-----CeEEEEecCCCCCHHH
Q 030225          108 DLEEKRKVK----NEEGELYAQENG-----LSFLETSAKSAHNVNE  144 (181)
Q Consensus       108 D~~~~~~~~----~~~~~~~~~~~~-----~~~~~~Sa~~~~gi~~  144 (181)
                      |+.+..+..    ..+...++...+     ++++.+|+..|.|+-+
T Consensus       155 D~~~~d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         155 DSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             GGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            986533211    223444555544     4689999999988643

>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=99.52  E-value=4.7e-15  Score=102.71  Aligned_cols=112  Identities=16%  Similarity=0.185  Sum_probs=72.9

Q ss_pred             EEEEEECCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHH------HHHHHHHHHHHHhCCCCceEEEEE
Q 030225           31 TQVLSLNEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSF------ERAKKWVQELQRQGNPNLIMFLVA  104 (181)
Q Consensus        31 ~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~------~~~~~~~~~~~~~~~~~~p~ivi~  104 (181)
                      .....++.....+.++|||||..|.......+.-+|++|+|+|+.++..-      ....+.+......  .-.++++++
T Consensus        71 ~~~~~~~~~~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~--~~~~iIv~i  148 (224)
T d1jnya3          71 LTFMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTM--GLDQLIVAV  148 (224)
T ss_dssp             ---CEEECSSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHT--TCTTCEEEE
T ss_pred             ceEEEEecCCceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHh--CCCceEEEE
Confidence            33344455567899999999999999999999999999999999975321      1223333333333  234688889


Q ss_pred             eCCCCcccc--cC----CHHHHHHHHHHcC-----CeEEEEecCCCCCHHH
Q 030225          105 NKVDLEEKR--KV----KNEEGELYAQENG-----LSFLETSAKSAHNVNE  144 (181)
Q Consensus       105 nK~D~~~~~--~~----~~~~~~~~~~~~~-----~~~~~~Sa~~~~gi~~  144 (181)
                      ||+|+....  ..    ...+...+....+     ++++.+||..|.|+.+
T Consensus       149 NK~D~~~~~~~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         149 NKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             ECGGGSSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             EcccCCCccccHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCccc
Confidence            999985311  11    1122333444433     4789999999998853

>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=99.43  E-value=2.6e-13  Score=101.29  Aligned_cols=148  Identities=14%  Similarity=0.143  Sum_probs=82.3

Q ss_pred             CCCchhHHHHHHhhCCCCCccccc---eeeeEEEEEEEECCeEEEEEEEeCCChhhhhc-----cchhhccCCcEEEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQEST---IGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS-----LAPMYYRGAAAAVVVY   72 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t---~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-----~~~~~~~~~d~~i~v~   72 (181)
                      ||||||||+|+|++..........   .+++.....+...+. -.+.+|||||-.....     +....+..+|+++++.
T Consensus        65 ~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~~~-~~~~l~DtPG~~~~~~~~~~~~~~~~~~~~d~~l~~~  143 (400)
T d1tq4a_          65 TGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNI-PNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIIS  143 (400)
T ss_dssp             TTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSSC-TTEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeeccCC-CeEEEEeCCCcccccccHHHHHHHhhhhcceEEEEec
Confidence            799999999999985543222111   122222222333222 2467999999643221     1233466789998887


Q ss_pred             ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccc-------ccCCHHHH----H----HHHHHcC---CeEEEE
Q 030225           73 DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEK-------RKVKNEEG----E----LYAQENG---LSFLET  134 (181)
Q Consensus        73 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~-------~~~~~~~~----~----~~~~~~~---~~~~~~  134 (181)
                      |..-.+.   -..++..+..   .++|+++|.||+|....       .....+..    +    ...+..+   .++|.+
T Consensus       144 ~~~~~~~---d~~l~~~l~~---~~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~~~~l~~~~~~~~~vflv  217 (400)
T d1tq4a_         144 ATRFKKN---DIDIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLL  217 (400)
T ss_dssp             SSCCCHH---HHHHHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEEC
T ss_pred             CCCCCHH---HHHHHHHHHH---cCCCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEe
Confidence            7432221   1233344433   36899999999996310       11111111    1    1122223   357888


Q ss_pred             ecCC--CCCHHHHHHHHHHHHHh
Q 030225          135 SAKS--AHNVNELFYEIAKRLAE  155 (181)
Q Consensus       135 Sa~~--~~gi~~~~~~l~~~~~~  155 (181)
                      |..+  ..|+.++.+.+.+.+.+
T Consensus       218 S~~~~~~~d~~~L~~~l~~~L~~  240 (400)
T d1tq4a_         218 SNKNVCHYDFPVLMDKLISDLPI  240 (400)
T ss_dssp             CTTCTTSTTHHHHHHHHHHHSCG
T ss_pred             cCCcccccCHHHHHHHHHHHhHH
Confidence            8765  45899999998777654

>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=99.32  E-value=2.1e-12  Score=93.93  Aligned_cols=70  Identities=19%  Similarity=0.198  Sum_probs=55.2

Q ss_pred             CCeEEEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCc
Q 030225           37 NEVTIKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLE  110 (181)
Q Consensus        37 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~  110 (181)
                      ++..+.++++|||||..|.......++-+|++++|+|+.++-......-| .....   .+.|.++++||+|..
T Consensus        92 ~~~~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~-~~a~~---~~~p~i~viNKiDr~  161 (341)
T d1n0ua2          92 DGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVL-RQALG---ERIKPVVVINKVDRA  161 (341)
T ss_dssp             CSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHH-HHHHH---TTCEEEEEEECHHHH
T ss_pred             cccceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHH-HHHHH---cCCCeEEEEECcccc
Confidence            34678899999999999999999999999999999999976544433333 33333   368999999999964

>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=99.30  E-value=5.8e-12  Score=88.63  Aligned_cols=114  Identities=11%  Similarity=0.034  Sum_probs=63.7

Q ss_pred             CCCchhHHHHHHhhCCCCCccc-cceeeeEEEEEEEECCeEEEEEEEeCCChhhhhc-------cchh--hccCCcEEEE
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQE-STIGAAFFTQVLSLNEVTIKFDIWDTAGQERYHS-------LAPM--YYRGAAAAVV   70 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-------~~~~--~~~~~d~~i~   70 (181)
                      ||||||||+|.+++........ +..+..........++  ..+.++||||-.....       ....  .....++++|
T Consensus        41 tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g--~~i~viDTPGl~~~~~~~~~~~~~i~~~~~~~~~~~il~  118 (257)
T d1h65a_          41 GGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLY  118 (257)
T ss_dssp             TTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEE
T ss_pred             CCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEecc--EEEEEEeeecccCCcchHHHHHHHHHHHHhcCCCCeEEE
Confidence            7999999999999876554332 1222222333344555  4678999999532111       1111  1235688999


Q ss_pred             EEECCChhHHHHHHHHHHHHHHhCC--CCceEEEEEeCCCCcccccCC
Q 030225           71 VYDITSMDSFERAKKWVQELQRQGN--PNLIMFLVANKVDLEEKRKVK  116 (181)
Q Consensus        71 v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~ivi~nK~D~~~~~~~~  116 (181)
                      |+++++..--......+..+.....  --.++++++||+|........
T Consensus       119 v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~~~~  166 (257)
T d1h65a_         119 VDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLP  166 (257)
T ss_dssp             EEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCC
T ss_pred             EEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCcCCCc
Confidence            9887653211111222233332221  235789999999986543333

>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=99.28  E-value=1.9e-12  Score=90.12  Aligned_cols=112  Identities=15%  Similarity=0.070  Sum_probs=66.6

Q ss_pred             EEEEEEeCCChhhhhccchh---h--ccCCcEEEEEEECCC---hhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCccc
Q 030225           41 IKFDIWDTAGQERYHSLAPM---Y--YRGAAAAVVVYDITS---MDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEK  112 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~---~--~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~  112 (181)
                      ..+.+.|+||+..+......   +  ....+.+++++|+..   +..+.............  ...|.++++||+|+...
T Consensus        95 ~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~--~~~~~ivvinK~D~~~~  172 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLR--LGATTIPALNKVDLLSE  172 (244)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHH--HTSCEEEEECCGGGCCH
T ss_pred             cceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHHH--hCCCceeeeeccccccH
Confidence            34789999999765433221   1  124568899999763   33332222111112122  36789999999998642


Q ss_pred             ccCCH--------------------------HHHHHHHHH--cCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225          113 RKVKN--------------------------EEGELYAQE--NGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       113 ~~~~~--------------------------~~~~~~~~~--~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      .+...                          ........+  ..++++.+||++|+|++++++.|.+...
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~~~  242 (244)
T d1yrba1         173 EEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYC  242 (244)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHHhc
Confidence            21000                          000001111  2478999999999999999999988653

>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=99.10  E-value=9.1e-11  Score=84.79  Aligned_cols=104  Identities=13%  Similarity=0.120  Sum_probs=63.1

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHH
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEG  120 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~  120 (181)
                      +.+.|++|.|.-.-.   .....-+|..++|..+..++..+....   .+.     ..+-++++||+|+.+.........
T Consensus       144 ~d~iiiETVG~gq~e---~~~~~~~D~~v~v~~p~~GD~iQ~~k~---gil-----E~aDi~vvNKaD~~~~~~~~~~~~  212 (323)
T d2qm8a1         144 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKK---GIF-----ELADMIAVNKADDGDGERRASAAA  212 (323)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCT---THH-----HHCSEEEEECCSTTCCHHHHHHHH
T ss_pred             CCeEEEeehhhhhhh---hhhhcccceEEEEeeccchhhhhhhhh---hHh-----hhhheeeEeccccccchHHHHHHH
Confidence            456788887753222   223345899999999987765443221   121     234588899999865433322222


Q ss_pred             HHHHHH----------cCCeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          121 ELYAQE----------NGLSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       121 ~~~~~~----------~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ..+...          +..+++.+||.+++|++++.++|.+....
T Consensus       213 ~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~~  257 (323)
T d2qm8a1         213 SEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRSK  257 (323)
T ss_dssp             HHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHHH
Confidence            222222          34579999999999999999999775543

>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=99.01  E-value=2.2e-10  Score=82.81  Aligned_cols=102  Identities=20%  Similarity=0.119  Sum_probs=57.1

Q ss_pred             EEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCC--HHH
Q 030225           42 KFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK--NEE  119 (181)
Q Consensus        42 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~--~~~  119 (181)
                      .+.+++|.|.....   ..+...+|.+++|.++...+.......   .+.+.     +-++|+||+|+.......  ..+
T Consensus       148 d~iliEtvG~gq~e---~~i~~~aD~~l~v~~P~~Gd~iq~~k~---gi~e~-----aDi~VvNKaD~~~~~~~~~~~~~  216 (327)
T d2p67a1         148 DVVIVETVGVGQSE---TEVARMVDCFISLQIAGGGDDLQGIKK---GLMEV-----ADLIVINKDDGDNHTNVAIARHM  216 (327)
T ss_dssp             SEEEEEEECCTTHH---HHHHTTCSEEEEEECC------CCCCH---HHHHH-----CSEEEECCCCTTCHHHHHHHHHH
T ss_pred             CeEEEeeccccccc---hhhhhccceEEEEecCCCchhhhhhch---hhhcc-----ccEEEEEeecccchHHHHHHHHH
Confidence            34556665532211   224566899999988765554433222   23222     347888999985432211  111


Q ss_pred             HHHHHH-------HcCCeEEEEecCCCCCHHHHHHHHHHHHH
Q 030225          120 GELYAQ-------ENGLSFLETSAKSAHNVNELFYEIAKRLA  154 (181)
Q Consensus       120 ~~~~~~-------~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~  154 (181)
                      ......       .+..+++.+||.+|+|++++.+.|.+...
T Consensus       217 ~~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~~  258 (327)
T d2p67a1         217 YESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  258 (327)
T ss_dssp             HHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHHH
Confidence            111111       12357999999999999999999977544

>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=98.99  E-value=1.2e-09  Score=77.38  Aligned_cols=75  Identities=17%  Similarity=0.089  Sum_probs=43.1

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCe---------------EEEEEEEeCCCh----hhhhccchh-
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEV---------------TIKFDIWDTAGQ----ERYHSLAPM-   60 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~----~~~~~~~~~-   60 (181)
                      ||||||||+++|.+.......-|..+.+...-.+.+.+.               ...+.++|+||.    ..-..+... 
T Consensus        11 Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga~~g~Glg~~F   90 (278)
T d1jala1          11 PNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASKGEGLGNKF   90 (278)
T ss_dssp             TTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHHHGGGTCCH
T ss_pred             CCCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCcccCCCccHHH
Confidence            899999999999986653222122111111111222221               235889999995    233334443 


Q ss_pred             --hccCCcEEEEEEECC
Q 030225           61 --YYRGAAAAVVVYDIT   75 (181)
Q Consensus        61 --~~~~~d~~i~v~d~~   75 (181)
                        .++++|+++.|+|+.
T Consensus        91 L~~ir~~d~LihVVr~f  107 (278)
T d1jala1          91 LANIRETDAIGHVVRCF  107 (278)
T ss_dssp             HHHHHTCSEEEEEEECS
T ss_pred             HHHHHhccceEEEeecc
Confidence              367899999999874

>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=98.91  E-value=2.8e-08  Score=70.86  Aligned_cols=75  Identities=15%  Similarity=0.084  Sum_probs=45.8

Q ss_pred             CCCchhHHHHHHhhCCC--CCccccceeeeEEEEEEEECC---------------eEEEEEEEeCCChhh----hhccch
Q 030225            1 MGTGKTSLVLRFVKGQF--FDFQESTIGAAFFTQVLSLNE---------------VTIKFDIWDTAGQER----YHSLAP   59 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~---------------~~~~~~i~D~~G~~~----~~~~~~   59 (181)
                      ||||||||+++|.+...  ...| |.++.+-..-.+.+.+               ....+.+.|+||...    -..+..
T Consensus        19 Pn~GKSTlfnalT~~~~~~~any-pftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~gA~~g~GLGn   97 (296)
T d1ni3a1          19 PNVGKSTFFRAITKSVLGNPANY-PYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGASTGVGLGN   97 (296)
T ss_dssp             SSSSHHHHHHHHHHSTTTSTTCC-SSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCCCSSSSSCH
T ss_pred             CCCCHHHHHHHHHCCCCCCcCCC-CccCccCCeEEEeccccchhhhhhcccCCceecccceeeeccccccccccccccHH
Confidence            89999999999997643  2333 2222211111223332               124688999998532    222222


Q ss_pred             h---hccCCcEEEEEEECCC
Q 030225           60 M---YYRGAAAAVVVYDITS   76 (181)
Q Consensus        60 ~---~~~~~d~~i~v~d~~~   76 (181)
                      .   .++.+|+++.|+|+.+
T Consensus        98 ~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          98 AFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             HHHHHHTTCSEEEEEEECCC
T ss_pred             HHHHHhhccceeEEEEeccC
Confidence            3   3688999999999865

>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=98.74  E-value=4.3e-08  Score=69.84  Aligned_cols=69  Identities=16%  Similarity=0.130  Sum_probs=43.2

Q ss_pred             EEEEeCCChhh-------------hhccchhhccCCc-EEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCC
Q 030225           43 FDIWDTAGQER-------------YHSLAPMYYRGAA-AAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVD  108 (181)
Q Consensus        43 ~~i~D~~G~~~-------------~~~~~~~~~~~~d-~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D  108 (181)
                      +.++|+||-..             ...+...|+...+ ++++|.+++....-.....+.+.+   .....++++|+||+|
T Consensus       127 l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~---~~~~~r~i~Vltk~D  203 (299)
T d2akab1         127 LTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEV---DPQGQRTIGVITKLD  203 (299)
T ss_dssp             EEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHH---CTTCSSEEEEEECGG
T ss_pred             eeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHHHHh---CcCCCceeeEEeccc
Confidence            78999999532             1233455666666 556677776554444445555544   234568999999999


Q ss_pred             Cccccc
Q 030225          109 LEEKRK  114 (181)
Q Consensus       109 ~~~~~~  114 (181)
                      ..+..+
T Consensus       204 ~~~~~~  209 (299)
T d2akab1         204 LMDEGT  209 (299)
T ss_dssp             GSCTTC
T ss_pred             cccchh
Confidence            865433

>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=98.62  E-value=7.3e-08  Score=65.48  Aligned_cols=86  Identities=17%  Similarity=0.178  Sum_probs=61.3

Q ss_pred             hhccCCcEEEEEEECCChh-HHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHH--cCCeEEEEec
Q 030225           60 MYYRGAAAAVVVYDITSMD-SFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQE--NGLSFLETSA  136 (181)
Q Consensus        60 ~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~--~~~~~~~~Sa  136 (181)
                      ....+.|.+++|+++.+|+ +...+.+++-.....   +.|.+|++||+||.+..+.  +....+...  .+.+++.+|+
T Consensus         6 P~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~~---~i~pvIvlnK~DL~~~~~~--~~~~~~~~~~~~~~~v~~vSa   80 (225)
T d1u0la2           6 PHVANVDQVILVVTVKMPETSTYIIDKFLVLAEKN---ELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSA   80 (225)
T ss_dssp             TTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHHT---TCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCT
T ss_pred             CCcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHc---CCCEEEEEeCcccCCHHHH--HHHHHhhcccccceeEEEecc
Confidence            3467899999999988765 355567776666444   6789999999999653221  222233332  3468899999


Q ss_pred             CCCCCHHHHHHHHH
Q 030225          137 KSAHNVNELFYEIA  150 (181)
Q Consensus       137 ~~~~gi~~~~~~l~  150 (181)
                      ++++|++++.++|.
T Consensus        81 ~~~~g~~~L~~~l~   94 (225)
T d1u0la2          81 KTGMGIEELKEYLK   94 (225)
T ss_dssp             TTCTTHHHHHHHHS
T ss_pred             ccchhHhhHHHHhc
Confidence            99999999988773

>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=98.61  E-value=3.8e-08  Score=70.84  Aligned_cols=76  Identities=20%  Similarity=0.102  Sum_probs=39.4

Q ss_pred             CCCchhHHHHHHhhCCCCCc-c-----ccceeeeEEEEEEE----------------ECCeEEEEEEEeCCChhhh----
Q 030225            1 MGTGKTSLVLRFVKGQFFDF-Q-----ESTIGAAFFTQVLS----------------LNEVTIKFDIWDTAGQERY----   54 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~-~-----~~t~~~~~~~~~~~----------------~~~~~~~~~i~D~~G~~~~----   54 (181)
                      ||||||||+|+|.+.+.... |     .|.+|+........                ......++.++|+||--..    
T Consensus         9 pn~GKStlfn~lt~~~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pGli~ga~~g   88 (319)
T d1wxqa1           9 PNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAGLVPGAHEG   88 (319)
T ss_dssp             TTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC---------
T ss_pred             CCCCHHHHHHHHHCCCCchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCCcccchhcc
Confidence            89999999999997654321 1     12223322111111                1123467999999995321    


Q ss_pred             hccch---hhccCCcEEEEEEECCC
Q 030225           55 HSLAP---MYYRGAAAAVVVYDITS   76 (181)
Q Consensus        55 ~~~~~---~~~~~~d~~i~v~d~~~   76 (181)
                      ..+..   ..++.+|++++|+|+.+
T Consensus        89 ~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          89 RGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             ------CCCSSTTCSEEEEEEETTC
T ss_pred             cchHHHHHHhhccceEEEEEecccc
Confidence            22222   23568999999999863

>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=98.44  E-value=2.9e-07  Score=65.68  Aligned_cols=67  Identities=16%  Similarity=0.183  Sum_probs=40.3

Q ss_pred             EEEEEeCCChhh-------------hhccchhhccCCcEEEEEE-ECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCC
Q 030225           42 KFDIWDTAGQER-------------YHSLAPMYYRGAAAAVVVY-DITSMDSFERAKKWVQELQRQGNPNLIMFLVANKV  107 (181)
Q Consensus        42 ~~~i~D~~G~~~-------------~~~~~~~~~~~~d~~i~v~-d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~  107 (181)
                      .+.++|+||-..             ...+...|+.+++.+++++ +......-.....+.+.+   .....++++|+||+
T Consensus       132 ~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~~~~~~~~---~~~~~r~i~Vitk~  208 (306)
T d1jwyb_         132 NLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEV---DPEGKRTIGVITKL  208 (306)
T ss_dssp             SEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHH---CSSCSSEEEEEECT
T ss_pred             CceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccccHHHHHHHHh---CcCCCeEEEEEecc
Confidence            467999999532             2234566788888766655 444322222233343333   23456899999999


Q ss_pred             CCcc
Q 030225          108 DLEE  111 (181)
Q Consensus       108 D~~~  111 (181)
                      |...
T Consensus       209 D~~~  212 (306)
T d1jwyb_         209 DLMD  212 (306)
T ss_dssp             TSSC
T ss_pred             cccc
Confidence            9854

>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=98.29  E-value=1.4e-07  Score=64.34  Aligned_cols=86  Identities=14%  Similarity=0.162  Sum_probs=61.1

Q ss_pred             hccCCcEEEEEEECCChh-HHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCC--HHHHHHHHHHcCCeEEEEecC
Q 030225           61 YYRGAAAAVVVYDITSMD-SFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVK--NEEGELYAQENGLSFLETSAK  137 (181)
Q Consensus        61 ~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~Sa~  137 (181)
                      ...+.|.+++|+++.+|+ ++..+.+++-....   .+.+.+||+||+||.+..+..  ...........|.+++.+|+.
T Consensus         7 ~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~---~~i~pvIvlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~~~Sa~   83 (231)
T d1t9ha2           7 PICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYLTSSK   83 (231)
T ss_dssp             TEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEEECCHH
T ss_pred             CccccCEEEEEEECCCCCCCHHHHHHHHHHHHH---cCCCEEEEEecccccccHHHHHHHHHHHHHHhhccccceeeecC
Confidence            457899999999988765 35666776655533   477889999999996532211  111223344568999999999


Q ss_pred             CCCCHHHHHHHH
Q 030225          138 SAHNVNELFYEI  149 (181)
Q Consensus       138 ~~~gi~~~~~~l  149 (181)
                      +++|++++.++|
T Consensus        84 ~~~gl~~L~~~l   95 (231)
T d1t9ha2          84 DQDSLADIIPHF   95 (231)
T ss_dssp             HHTTCTTTGGGG
T ss_pred             ChhHHHHHHHhh
Confidence            999998887765

>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=98.28  E-value=9.7e-07  Score=61.96  Aligned_cols=89  Identities=12%  Similarity=0.101  Sum_probs=62.0

Q ss_pred             hhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCC
Q 030225           59 PMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKS  138 (181)
Q Consensus        59 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  138 (181)
                      ...++.+|++++|.|+.+|-+..+  ..+..+.    .++|.++|+||+|+.+...  .++-.++....+...+.+|+.+
T Consensus        10 ~~~i~~~DvIl~V~DaR~P~ss~~--~~l~~~~----~~Kp~IlVlNK~DLv~~~~--~~~w~~~f~~~~~~~i~isa~~   81 (273)
T d1puja_          10 TEKLKLIDIVYELVDARIPMSSRN--PMIEDIL----KNKPRIMLLNKADKADAAV--TQQWKEHFENQGIRSLSINSVN   81 (273)
T ss_dssp             HHHGGGCSEEEEEEETTSTTTTSC--HHHHHHC----SSSCEEEEEECGGGSCHHH--HHHHHHHHHTTTCCEEECCTTT
T ss_pred             HHHHHhCCEEEEEEECCCCCCCCC--HHHHHHH----cCCCeEEEEECccCCchHH--HHHHHHHHHhcCCccceeeccc
Confidence            456889999999999998765332  1122221    3679999999999965322  1222334444568899999999


Q ss_pred             CCCHHHHHHHHHHHHHh
Q 030225          139 AHNVNELFYEIAKRLAE  155 (181)
Q Consensus       139 ~~gi~~~~~~l~~~~~~  155 (181)
                      +.|...+.+.+.+.+.+
T Consensus        82 ~~~~~~~~~~~~~~l~~   98 (273)
T d1puja_          82 GQGLNQIVPASKEILQE   98 (273)
T ss_dssp             CTTGGGHHHHHHHHHHH
T ss_pred             CCCccccchhhhhhhhh
Confidence            99998888877766554

>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=98.20  E-value=4.4e-07  Score=63.77  Aligned_cols=48  Identities=21%  Similarity=0.313  Sum_probs=27.9

Q ss_pred             CCCchhHHHHHHhhCCCCCccccceeeeEEEEEEEECCeEEEEEEEeCCChh
Q 030225            1 MGTGKTSLVLRFVKGQFFDFQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQE   52 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~   52 (181)
                      ||||||||+|+|.+..... ..+..|++.....+..+.   .+.++||||-.
T Consensus       121 PNvGKSsliN~L~~~~~~~-~~~~pG~Tr~~~~i~~~~---~~~l~DTPGi~  168 (273)
T d1puja_         121 PNVGKSTLINRLAKKNIAK-TGDRPGITTSQQWVKVGK---ELELLDTPGIL  168 (273)
T ss_dssp             TTSSHHHHHHHHHTSCCC-------------CCEEETT---TEEEEECCCCC
T ss_pred             CccchhhhhhhhhccceEE-ECCcccccccceEEECCC---CeEEecCCCcc
Confidence            8999999999999876544 336667666555554433   36799999953

>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=98.09  E-value=4e-06  Score=56.94  Aligned_cols=71  Identities=10%  Similarity=0.057  Sum_probs=39.6

Q ss_pred             CcEEEEEEECCChhHHHHH-HHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcC--CeEEEEecCCCCC
Q 030225           65 AAAAVVVYDITSMDSFERA-KKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENG--LSFLETSAKSAHN  141 (181)
Q Consensus        65 ~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~g  141 (181)
                      .+++|.|+|+......... ..+..++ +.     .-++++||+|+...    .+...+..+..+  .++++++ .-...
T Consensus       122 l~~vi~vVDa~~~~~~~~~~~~~~~Qi-~~-----AD~ivlNK~Dl~~~----~~~~~~~l~~lNP~a~Ii~~~-~g~v~  190 (222)
T d1nija1         122 LDGVIALVDAVHADEQMNQFTIAQSQV-GY-----ADRILLTKTDVAGE----AEKLHERLARINARAPVYTVT-HGDID  190 (222)
T ss_dssp             EEEEEEEEETTTHHHHHHHCHHHHHHH-HT-----CSEEEEECTTTCSC----THHHHHHHHHHCSSSCEEECC-SSCCC
T ss_pred             ccchhhhhhhhhhhhhhhhhHHHHHHH-Hh-----CCcccccccccccH----HHHHHHHHHHHhCCCeEEEee-CCccC
Confidence            5788999999875432221 1122222 22     24677999998652    234555666665  5676554 22345


Q ss_pred             HHHHH
Q 030225          142 VNELF  146 (181)
Q Consensus       142 i~~~~  146 (181)
                      +..+|
T Consensus       191 ~~~ll  195 (222)
T d1nija1         191 LGLLF  195 (222)
T ss_dssp             GGGGS
T ss_pred             HHHhh
Confidence            55554

>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=98.00  E-value=8e-07  Score=60.25  Aligned_cols=51  Identities=22%  Similarity=0.191  Sum_probs=28.8

Q ss_pred             CCCchhHHHHHHhhCCCCCc------cccceeeeEEEEEEEECCeEEEEEEEeCCChhhh
Q 030225            1 MGTGKTSLVLRFVKGQFFDF------QESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY   54 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~~------~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   54 (181)
                      ||||||||+|+|.+.....+      ....--++.....+.++++.   .++||||-..+
T Consensus       104 SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~gg---~iiDTPG~r~~  160 (225)
T d1u0la2         104 SGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFGG---YVVDTPGFANL  160 (225)
T ss_dssp             TTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTSC---EEESSCSSTTC
T ss_pred             CCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCCc---EEEeCCccccc
Confidence            79999999999986532211      11111123333445555443   49999996443

>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=97.79  E-value=1.7e-06  Score=58.79  Aligned_cols=50  Identities=16%  Similarity=0.093  Sum_probs=25.3

Q ss_pred             CCCchhHHHHHHhhCCCCC------ccccceeeeEEEEEEEECCeEEEEEEEeCCChhhh
Q 030225            1 MGTGKTSLVLRFVKGQFFD------FQESTIGAAFFTQVLSLNEVTIKFDIWDTAGQERY   54 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~~~------~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   54 (181)
                      ||||||||+|+|.+.....      .....--++.....+..+++    .++||||-.++
T Consensus       106 SGVGKSSLiN~L~~~~~~~t~~vs~~~~rGrHTTt~~~l~~~~gg----~iiDTPG~r~~  161 (231)
T d1t9ha2         106 SGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVELIHTSGG----LVADTPGFSSL  161 (231)
T ss_dssp             HHHHHHHHHHHHCC-------------------CCCCCEEEETTE----EEESSCSCSSC
T ss_pred             CCccHHHHHHhhccHhHhhhcccccccCCCceeeeeEEEEecCCC----EEEECCccccc
Confidence            6899999999998753211      11111011122222345553    38899996543

>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=97.41  E-value=0.0013  Score=42.10  Aligned_cols=14  Identities=50%  Similarity=0.752  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+|||||++.+.+
T Consensus         9 ~G~GKSTLl~~i~~   22 (178)
T d1ye8a1           9 PGVGKTTLVKKIVE   22 (178)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHh
Confidence            79999999999986

>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=97.09  E-value=0.00025  Score=47.27  Aligned_cols=91  Identities=16%  Similarity=0.135  Sum_probs=52.0

Q ss_pred             EEEEEEeCCChhhhhc----cc---hhhcc-----CCcEEEEEEECCCh-hHHHHHHHHHHHHHHhCCCCceEEEEEeCC
Q 030225           41 IKFDIWDTAGQERYHS----LA---PMYYR-----GAAAAVVVYDITSM-DSFERAKKWVQELQRQGNPNLIMFLVANKV  107 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~----~~---~~~~~-----~~d~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~  107 (181)
                      +.+.++||+|......    ..   ....+     ..+-.++|.|++.. +....+...+..+       .+--+|+||.
T Consensus        92 ~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~-------~~~~lIlTKl  164 (211)
T d2qy9a2          92 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAV-------GLTGITLTKL  164 (211)
T ss_dssp             CSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHHS-------CCCEEEEECC
T ss_pred             CCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHHhhhhhcc-------CCceEEEeec
Confidence            3578999999432211    11   11122     24678889998743 3333333322222       2456778999


Q ss_pred             CCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHH
Q 030225          108 DLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNE  144 (181)
Q Consensus       108 D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  144 (181)
                      |....    .=.+.......++|+.+++  .|+++++
T Consensus       165 De~~~----~G~~l~~~~~~~~Pi~~i~--~Gq~v~D  195 (211)
T d2qy9a2         165 DGTAK----GGVIFSVADQFGIPIRYIG--VGERIED  195 (211)
T ss_dssp             TTCTT----TTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             CCCCC----ccHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            96331    2244556777889988886  6776644

>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=97.00  E-value=0.00071  Score=45.13  Aligned_cols=92  Identities=15%  Similarity=0.047  Sum_probs=51.3

Q ss_pred             EEEEEEeCCChhhhhcc----chhh---cc-----CCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCC
Q 030225           41 IKFDIWDTAGQERYHSL----APMY---YR-----GAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVD  108 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~----~~~~---~~-----~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D  108 (181)
                      +.+.|+||+|...+...    ...+   ..     ..+-.++|.|++..  .+.+..........    .+--+|++|.|
T Consensus        94 ~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~--~~~~~~~~~~~~~~----~~~~lI~TKlD  167 (213)
T d1vmaa2          94 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTG--QNGLVQAKIFKEAV----NVTGIILTKLD  167 (213)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGH--HHHHHHHHHHHHHS----CCCEEEEECGG
T ss_pred             CCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccC--cchhhhhhhhcccc----CCceEEEeccc
Confidence            45789999994322111    1111   11     24678899998743  22222222222222    24557789999


Q ss_pred             CcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHH
Q 030225          109 LEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNE  144 (181)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  144 (181)
                      ...    ..-.+...+...++|+.+++  +|+++++
T Consensus       168 e~~----~~G~~l~~~~~~~~Pi~~i~--~Gq~v~D  197 (213)
T d1vmaa2         168 GTA----KGGITLAIARELGIPIKFIG--VGEKAED  197 (213)
T ss_dssp             GCS----CTTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             CCC----cccHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            532    12244566677889988886  5766654

>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=96.76  E-value=0.00024  Score=45.23  Aligned_cols=14  Identities=43%  Similarity=0.771  Sum_probs=12.9

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||||||||+++|..
T Consensus        11 ~GSGKTTL~~~L~~   24 (170)
T d1np6a_          11 SGTGKTTLLKKLIP   24 (170)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999985

>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=96.58  E-value=0.001  Score=42.08  Aligned_cols=17  Identities=35%  Similarity=0.513  Sum_probs=13.8

Q ss_pred             CCchhHHHHHHhhCCCC
Q 030225            2 GTGKTSLVLRFVKGQFF   18 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~   18 (181)
                      |||||||++.++..-..
T Consensus        43 GaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          43 GAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             TSSHHHHHHHHHHHTTC
T ss_pred             CccHHHHHHHHHhhccc
Confidence            89999999999864433

>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=96.52  E-value=0.0005  Score=45.72  Aligned_cols=84  Identities=15%  Similarity=0.145  Sum_probs=47.6

Q ss_pred             EEEEEEeCCChhhhhc----cchhh--ccCCcEEEEEEECCChhH-HHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccc
Q 030225           41 IKFDIWDTAGQERYHS----LAPMY--YRGAAAAVVVYDITSMDS-FERAKKWVQELQRQGNPNLIMFLVANKVDLEEKR  113 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~----~~~~~--~~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~  113 (181)
                      ..+.++||+|......    .+..+  ..+.+-+++|.|++.... .+.+....+.+       .+--+|++|.|...  
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~~-------~~~~~I~TKlDe~~--  163 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKV-------GVTGLVLTKLDGDA--  163 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHT-------CCCEEEEECGGGCS--
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhhC-------CCCeeEEeecCccc--
Confidence            4678999999532221    11111  235678899999875533 22222221212       12347789999532  


Q ss_pred             cCCHHHHHHHHHHcCCeEEEEe
Q 030225          114 KVKNEEGELYAQENGLSFLETS  135 (181)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~S  135 (181)
                        ..-.+...+...++|+.+++
T Consensus       164 --~~G~~l~~~~~~~~Pi~~i~  183 (207)
T d1ls1a2         164 --RGGAALSARHVTGKPIYFAG  183 (207)
T ss_dssp             --SCHHHHHHHHHHCCCEEEEC
T ss_pred             --cchHHHHHHHHHCCCEEEEe
Confidence              22345566777888887774

>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=96.45  E-value=0.00051  Score=43.76  Aligned_cols=14  Identities=36%  Similarity=0.586  Sum_probs=12.6

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||||||||+++|+.
T Consensus        10 ~gSGKTTli~~l~~   23 (165)
T d1xjca_          10 KHSGKTTLMEKWVA   23 (165)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999974

>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=96.13  E-value=0.00096  Score=41.54  Aligned_cols=15  Identities=27%  Similarity=0.550  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||+++|...
T Consensus        11 pGsGKTTla~~L~~~   25 (152)
T d1ly1a_          11 PGSGKSTWAREFIAK   25 (152)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHh
Confidence            899999999998753

>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=95.96  E-value=0.0011  Score=42.39  Aligned_cols=36  Identities=6%  Similarity=0.122  Sum_probs=25.3

Q ss_pred             HHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhCC
Q 030225          120 GELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVNP  158 (181)
Q Consensus       120 ~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~~  158 (181)
                      ...+.+.++.+++.+..   .++++.++.+.+.+.+...
T Consensus       148 ~~~~l~~~~~~~i~i~~---~~~~e~~~~i~~~I~~ll~  183 (192)
T d1lw7a2         148 LKKLLDKYKVPYIEIES---PSYLDRYNQVKAVIEKVLN  183 (192)
T ss_dssp             HHHHHHGGGCCCEEEEC---SSHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHCCCCEEEeCC---CCHHHHHHHHHHHHHHHHC
Confidence            44456667788877753   4688888888888776544

>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=95.60  E-value=0.0022  Score=42.10  Aligned_cols=43  Identities=16%  Similarity=0.199  Sum_probs=24.2

Q ss_pred             cCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEEEeCCCC
Q 030225           63 RGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLVANKVDL  109 (181)
Q Consensus        63 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~  109 (181)
                      ...++.++++|..++..  ..+.++..+...  ...+++++.++++.
T Consensus        82 ~~~~~~~vi~d~~~~~~--~~r~~~~~~~~~--~~~~~~~~~~~~~~  124 (213)
T d1bifa1          82 SEEGGHVAVFDATNTTR--ERRAMIFNFGEQ--NGYKTFFVESICVD  124 (213)
T ss_dssp             HTTCCSEEEEESCCCSH--HHHHHHHHHHHH--HTCEEEEEEECCCC
T ss_pred             HhcCCCEEEeecCCccH--HHHHHHHHHHHh--cCCeEEEEEeeccH
Confidence            34556677888876432  223333444333  24567777777763

>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=95.53  E-value=0.0024  Score=40.25  Aligned_cols=15  Identities=27%  Similarity=0.461  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      |||||||++++|...
T Consensus        11 ~GsGKTTva~~L~~~   25 (176)
T d2bdta1          11 AGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            899999999998753

>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=95.47  E-value=0.0026  Score=40.16  Aligned_cols=14  Identities=36%  Similarity=0.458  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.++|..
T Consensus        13 pGsGKTTia~~La~   26 (173)
T d1rkba_          13 PGVGKTTLGKELAS   26 (173)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            89999999998864

>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=95.32  E-value=0.0014  Score=42.35  Aligned_cols=15  Identities=13%  Similarity=0.361  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +||||+||+++|+..
T Consensus        12 sg~GK~tl~~~L~~~   26 (178)
T d1kgda_          12 HGVGRRHIKNTLITK   26 (178)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHh
Confidence            699999999999853

>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=95.31  E-value=0.0032  Score=40.07  Aligned_cols=14  Identities=36%  Similarity=0.567  Sum_probs=12.6

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+|||||+..+..
T Consensus        10 ~GtGKTtl~~~i~~   23 (189)
T d2i3ba1          10 PGVGKTTLIHKASE   23 (189)
T ss_dssp             CSSCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            79999999999874

>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=95.17  E-value=0.0036  Score=40.07  Aligned_cols=14  Identities=21%  Similarity=0.513  Sum_probs=12.6

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.++|..
T Consensus        23 pGsGKST~a~~l~~   36 (172)
T d1yj5a2          23 PGAGKSTFIQEHLV   36 (172)
T ss_dssp             TTSSHHHHHHHHTG
T ss_pred             CCCCHHHHHHHHHH
Confidence            89999999999864

>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=95.07  E-value=0.0038  Score=39.56  Aligned_cols=18  Identities=22%  Similarity=0.218  Sum_probs=14.0

Q ss_pred             CCCHHHHHHHHHHHHHhh
Q 030225          139 AHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       139 ~~gi~~~~~~l~~~~~~~  156 (181)
                      ...++++.+.|++.+..+
T Consensus       160 ~~s~~e~v~~I~~~L~~~  177 (183)
T d1m8pa3         160 KQSVRSIVHEIILVLESQ  177 (183)
T ss_dssp             TSCHHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHHc
Confidence            357899999998887654

>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=95.01  E-value=0.0041  Score=39.69  Aligned_cols=26  Identities=12%  Similarity=0.160  Sum_probs=17.0

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225          127 NGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       127 ~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      .+.++..+... ...++++++.+++.+
T Consensus       164 ~~~~~~~v~~~-~~~~ee~~~ei~~~l  189 (190)
T d1khta_         164 TGATVKIVQNR-NGLLDQAVEELTNVL  189 (190)
T ss_dssp             HCCEEEEEECC-TTCHHHHHHHHHHHH
T ss_pred             hCCCeEEEECC-CCCHHHHHHHHHHHh
Confidence            45665555433 356899999888765

>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=94.90  E-value=0.005  Score=38.82  Aligned_cols=14  Identities=21%  Similarity=0.480  Sum_probs=12.7

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.++|..
T Consensus        15 ~GsGKsT~a~~La~   28 (171)
T d1knqa_          15 SGSGKSAVASEVAH   28 (171)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999999875

>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=94.87  E-value=0.0051  Score=38.86  Aligned_cols=15  Identities=20%  Similarity=0.233  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      |||||||+.+.|...
T Consensus        12 ~GsGKsTva~~L~~~   26 (178)
T d1qhxa_          12 SSAGKSGIVRCLQSV   26 (178)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998753

>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=94.86  E-value=0.012  Score=40.62  Aligned_cols=49  Identities=20%  Similarity=0.129  Sum_probs=30.5

Q ss_pred             CCchhHHHHHHhhCCCCCc-----cccceeeeEEEEEEEE-CCeEEEEEEEeCCChh
Q 030225            2 GTGKTSLVLRFVKGQFFDF-----QESTIGAAFFTQVLSL-NEVTIKFDIWDTAGQE   52 (181)
Q Consensus         2 ~~GKttLl~~l~~~~~~~~-----~~~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~   52 (181)
                      ++|||+|+|.|++....-.     ..-|.|+  ..+.... ++....+.++||.|..
T Consensus        42 ~sGKS~llN~l~~~~~~f~~~~~~~~~T~Gi--w~~~~~~~~~~~~~~~~lDteG~~   96 (277)
T d1f5na2          42 RTGKSYLMNKLAGKKKGFSLGSTVQSHTKGI--WMWCVPHPKKPGHILVLLDTEGLG   96 (277)
T ss_dssp             TSSHHHHHHHHTTCSSCSCCCCSSSCCCCSE--EEEEEECSSSTTCEEEEEEECCBC
T ss_pred             CCCHHHHHHHHcCCCCCCccCCCCCCCCCce--EEEEeeccCCCCceEEEEeccccc
Confidence            6899999999998653221     1234443  2333332 3445578899999964

>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=94.80  E-value=0.005  Score=38.88  Aligned_cols=14  Identities=43%  Similarity=0.484  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        14 ~GsGKTT~~~~La~   27 (174)
T d1y63a_          14 PGTGKTSMAEMIAA   27 (174)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999998864

>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=94.78  E-value=0.0055  Score=39.50  Aligned_cols=14  Identities=29%  Similarity=0.430  Sum_probs=12.4

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||||||||.++|..
T Consensus        31 ~GSGKSTla~~L~~   44 (198)
T d1rz3a_          31 SRSGKTTLANQLSQ   44 (198)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999864

>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=94.62  E-value=0.0088  Score=42.28  Aligned_cols=16  Identities=25%  Similarity=0.393  Sum_probs=13.8

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.|+..-
T Consensus       175 tgSGKTT~l~al~~~i  190 (323)
T d1g6oa_         175 TGSGKTTYIKSIMEFI  190 (323)
T ss_dssp             TTSSHHHHHHHHGGGS
T ss_pred             ccccchHHHHHHhhhc
Confidence            5899999999998644

>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=94.53  E-value=0.0035  Score=40.47  Aligned_cols=19  Identities=21%  Similarity=0.328  Sum_probs=14.8

Q ss_pred             CCCCHHHHHHHHHHHHHhh
Q 030225          138 SAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       138 ~~~gi~~~~~~l~~~~~~~  156 (181)
                      ++..++++.+.|++.+.++
T Consensus       172 ~~~s~ee~~~~Il~~l~~~  190 (195)
T d1x6va3         172 DSCDVNDCVQQVVELLQER  190 (195)
T ss_dssp             TTSCHHHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHC
Confidence            3457999999999887665

>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=94.48  E-value=0.0078  Score=37.98  Aligned_cols=15  Identities=20%  Similarity=0.368  Sum_probs=12.8

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      |||||||+.+.|...
T Consensus        13 ~GsGKSTia~~La~~   27 (176)
T d1zp6a1          13 PGSGKSTIAEALANL   27 (176)
T ss_dssp             TTSCHHHHHHHHHTC
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999888654

>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=94.48  E-value=0.0067  Score=37.65  Aligned_cols=14  Identities=29%  Similarity=0.636  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        11 ~GsGKSTvak~La~   24 (169)
T d1kaga_          11 MGAGKSTIGRQLAQ   24 (169)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999988864

>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=94.38  E-value=0.0078  Score=38.47  Aligned_cols=26  Identities=12%  Similarity=0.038  Sum_probs=17.2

Q ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHHH
Q 030225          127 NGLSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       127 ~~~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      .+.+...+..-+ ..++++.+.|++.+
T Consensus       168 ~~~~~~~I~~~~-~~~ee~~~~Ii~~i  193 (194)
T d1nksa_         168 AGSTVKVIVNVE-GDPSIAANEIIRSM  193 (194)
T ss_dssp             HTCEEEEEECCS-SCHHHHHHHHHHHH
T ss_pred             hCCCeEEEECCC-CCHHHHHHHHHHHh
Confidence            456655554333 45999999988765

>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=94.35  E-value=0.0074  Score=40.51  Aligned_cols=16  Identities=19%  Similarity=0.212  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        40 sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          40 SGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCCcchhhHhccCCC
Confidence            6999999999777643

>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=94.24  E-value=0.0081  Score=39.42  Aligned_cols=24  Identities=17%  Similarity=0.145  Sum_probs=16.5

Q ss_pred             EEecCCCCCHHHHHHHHHHHHHhh
Q 030225          133 ETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       133 ~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +++..+......+++.|.+...+.
T Consensus       152 Pt~gLD~~~~~~i~~~l~~~~~~~  175 (200)
T d1sgwa_         152 PVVAIDEDSKHKVLKSILEILKEK  175 (200)
T ss_dssp             TTTTSCTTTHHHHHHHHHHHHHHH
T ss_pred             cccccCHHHHHHHHHHHHHHHhCC
Confidence            346777777777888777765543

>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=94.21  E-value=0.0089  Score=40.16  Aligned_cols=15  Identities=27%  Similarity=0.335  Sum_probs=12.9

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus        35 sGsGKSTLl~~i~Gl   49 (232)
T d2awna2          35 SGCGKSTLLRMIAGL   49 (232)
T ss_dssp             TTSSHHHHHHHHHTS
T ss_pred             CCChHHHHHHHHhcC
Confidence            699999999988764

>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=94.11  E-value=0.0023  Score=41.49  Aligned_cols=15  Identities=33%  Similarity=0.618  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||+++|...
T Consensus        10 sG~GK~tl~~~L~~~   24 (186)
T d1gkya_          10 SGTGKSTLLKKLFAE   24 (186)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHh
Confidence            699999999999754

>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=94.00  E-value=0.01  Score=40.00  Aligned_cols=16  Identities=25%  Similarity=0.260  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        41 sGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          41 SGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             TTSSHHHHHHHHHTSS
T ss_pred             CCChHHHHHHHHHcCC
Confidence            6999999999888654

>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=93.91  E-value=0.01  Score=40.07  Aligned_cols=16  Identities=25%  Similarity=0.302  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        40 sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          40 SGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHcCCc
Confidence            6999999999887643

>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=93.88  E-value=0.01  Score=40.08  Aligned_cols=15  Identities=27%  Similarity=0.361  Sum_probs=12.9

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus        38 sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          38 SGSGKSTLTKLIQRF   52 (241)
T ss_dssp             TTSSHHHHHHHHTTS
T ss_pred             CCCCHHHHHHHHHhc
Confidence            699999999888764

>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=93.71  E-value=0.012  Score=38.86  Aligned_cols=25  Identities=12%  Similarity=0.093  Sum_probs=17.4

Q ss_pred             EEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225          132 LETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus       132 ~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      +.+.. +..++++..+.|++.+.++.
T Consensus       179 l~Idt-~~~s~~e~~~~Ii~~L~~~~  203 (208)
T d1m7ga_         179 VHVKN-YELPVQDAVKQIIDYLDTKG  203 (208)
T ss_dssp             EEEEC-SSSCHHHHHHHHHHHHHHTT
T ss_pred             EEEeC-CCCCHHHHHHHHHHHHHHcC
Confidence            44432 34579999999998877653

>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=93.71  E-value=0.013  Score=37.90  Aligned_cols=14  Identities=29%  Similarity=0.489  Sum_probs=12.7

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.++|..
T Consensus        15 pGSGKsT~a~~La~   28 (194)
T d1qf9a_          15 PGSGKGTQCANIVR   28 (194)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            89999999999875

>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=93.70  E-value=0.012  Score=39.98  Aligned_cols=15  Identities=40%  Similarity=0.468  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++++.+.
T Consensus        41 PGtGKT~la~~la~~   55 (273)
T d1gvnb_          41 PGSGKTSLRSAIFEE   55 (273)
T ss_dssp             TTSCTHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            899999999999764

>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=93.69  E-value=0.13  Score=33.66  Aligned_cols=92  Identities=15%  Similarity=0.084  Sum_probs=52.9

Q ss_pred             EEEEEEeCCChhhhhcc----chhh--------ccCCcEEEEEEECCCh-hHHHHHHHHHHHHHHhCCCCceEEEEEeCC
Q 030225           41 IKFDIWDTAGQERYHSL----APMY--------YRGAAAAVVVYDITSM-DSFERAKKWVQELQRQGNPNLIMFLVANKV  107 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~----~~~~--------~~~~d~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~p~ivi~nK~  107 (181)
                      +.+.++||+|...+...    ...+        ....+-.++|.|++.. +....+...+..+       .+--+|+||.
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~-------~~~~lI~TKl  161 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAV-------GLTGVIVTKL  161 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHH-------CCSEEEEECT
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhcc-------CCceEEEecc
Confidence            46789999995332211    1111        1245778899998854 3344444443333       1335678999


Q ss_pred             CCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHH
Q 030225          108 DLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNEL  145 (181)
Q Consensus       108 D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~  145 (181)
                      |.....    =.+...+...++|+.+++  +|++.+++
T Consensus       162 Det~~~----G~~l~~~~~~~~Pi~~i~--~Gq~p~Dl  193 (207)
T d1okkd2         162 DGTAKG----GVLIPIVRTLKVPIKFVG--VGEGPDDL  193 (207)
T ss_dssp             TSSCCC----TTHHHHHHHHCCCEEEEE--CSSSTTCE
T ss_pred             CCCCCc----cHHHHHHHHHCCCEEEEe--CCCChHhC
Confidence            964322    234556667889987776  35554433

>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=93.63  E-value=0.013  Score=39.46  Aligned_cols=16  Identities=19%  Similarity=0.204  Sum_probs=13.7

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        33 nGaGKSTll~~i~Gl~   48 (240)
T d2onka1          33 TGAGKSVFLELIAGIV   48 (240)
T ss_dssp             TTSSHHHHHHHHHTSS
T ss_pred             CCChHHHHHHHHHcCC
Confidence            5999999999888754

>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=93.60  E-value=0.0096  Score=39.88  Aligned_cols=16  Identities=25%  Similarity=0.243  Sum_probs=13.8

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        35 sGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          35 TGAGKTLFLELIAGFH   50 (229)
T ss_dssp             CTHHHHHHHHHHHTSS
T ss_pred             CCCcHHHHHHHHhcCc
Confidence            6999999999998754

>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=93.53  E-value=0.014  Score=39.35  Aligned_cols=16  Identities=25%  Similarity=0.260  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        38 sGaGKSTll~~i~gl~   53 (240)
T d1g2912          38 SGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TTSSHHHHHHHHHTSS
T ss_pred             CCChHHHHHHHHhcCC
Confidence            6999999999887654

>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=93.51  E-value=0.014  Score=39.12  Aligned_cols=15  Identities=33%  Similarity=0.539  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|+|||||++.+.+-
T Consensus        34 nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          34 NGAGKSTLLARMAGM   48 (231)
T ss_dssp             TTSSHHHHHHHHHTS
T ss_pred             CCCcHHHHHHHHhCC
Confidence            599999999999873

>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=93.47  E-value=0.015  Score=37.01  Aligned_cols=23  Identities=13%  Similarity=0.367  Sum_probs=16.4

Q ss_pred             EEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          131 FLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       131 ~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ++.+.+-  ..++++++.+...+..
T Consensus       157 ~~~Id~~--~~~eeV~~~I~~~L~~  179 (182)
T d1zina1         157 LRNINGE--QDMEKVFADIRELLGG  179 (182)
T ss_dssp             EEEEECS--SCHHHHHHHHHHHHHH
T ss_pred             EEEEECC--CCHHHHHHHHHHHHHh
Confidence            4556653  3699999999887654

>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=93.46  E-value=0.015  Score=37.45  Aligned_cols=14  Identities=14%  Similarity=0.064  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        12 pGsGKsT~a~~La~   25 (189)
T d1zaka1          12 PASGKGTQCELIKT   25 (189)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            89999999988864

>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=93.43  E-value=0.015  Score=38.86  Aligned_cols=15  Identities=33%  Similarity=0.377  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+...
T Consensus        44 pGtGKT~lA~~la~~   58 (238)
T d1in4a2          44 PGLGKTTLAHIIASE   58 (238)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHhc
Confidence            899999999988754

>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=93.38  E-value=0.014  Score=39.70  Aligned_cols=15  Identities=20%  Similarity=0.370  Sum_probs=12.7

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus        50 sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          50 SGSGKSTIASLITRF   64 (253)
T ss_dssp             TTSSHHHHHHHHTTT
T ss_pred             CCChHHHHHHHHhcc
Confidence            699999999888753

>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=93.36  E-value=0.015  Score=38.82  Aligned_cols=15  Identities=33%  Similarity=0.397  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+...
T Consensus        44 pG~GKTtla~~la~~   58 (239)
T d1ixsb2          44 PGLGKTTLAHVIAHE   58 (239)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            899999999988754

>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=93.29  E-value=0.015  Score=39.29  Aligned_cols=15  Identities=20%  Similarity=0.293  Sum_probs=12.7

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus        37 sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          37 SGGGKSTIFSLLERF   51 (242)
T ss_dssp             TTSSHHHHHHHHTTS
T ss_pred             CCCCHHHHHHHHHHh
Confidence            699999999888753

>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=93.26  E-value=0.016  Score=37.96  Aligned_cols=14  Identities=29%  Similarity=0.574  Sum_probs=12.1

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|||||||.++|..
T Consensus        11 ~gSGKSTla~~L~~   24 (213)
T d1uj2a_          11 TASGKSSVCAKIVQ   24 (213)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999998854

>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=93.25  E-value=0.015  Score=39.48  Aligned_cols=15  Identities=20%  Similarity=0.315  Sum_probs=12.7

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus        49 sGsGKSTLl~li~gl   63 (251)
T d1jj7a_          49 NGSGKSTVAALLQNL   63 (251)
T ss_dssp             TTSSHHHHHHHHTTS
T ss_pred             CCCcHHHHHHHHhcc
Confidence            699999999887753

>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=93.24  E-value=0.017  Score=36.91  Aligned_cols=14  Identities=36%  Similarity=0.472  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus         9 pGSGKsT~a~~La~   22 (182)
T d1s3ga1           9 PGAGKGTQADRIVE   22 (182)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            89999999988875

>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=93.23  E-value=0.017  Score=36.83  Aligned_cols=22  Identities=18%  Similarity=0.286  Sum_probs=16.0

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHHH
Q 030225          130 SFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       130 ~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      .++.+.+-  ..++++++.+.+.+
T Consensus       158 ~~~~Id~~--~s~eeV~~~I~~~l  179 (181)
T d2cdna1         158 QLKTVDAV--GTMDEVFARALRAL  179 (181)
T ss_dssp             TEEEEECC--SCHHHHHHHHHHHT
T ss_pred             CeEEEECC--CCHHHHHHHHHHHh
Confidence            46677652  37999999988765

>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=93.20  E-value=0.017  Score=39.97  Aligned_cols=15  Identities=40%  Similarity=0.651  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+.
T Consensus        71 nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          71 TGSGKTSLLMLILGE   85 (281)
T ss_dssp             TTSSHHHHHHHHHTS
T ss_pred             CCChHHHHHHHHhCC
Confidence            699999999988863

>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=93.16  E-value=0.017  Score=36.35  Aligned_cols=14  Identities=36%  Similarity=0.615  Sum_probs=11.8

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        10 ~G~GKSTig~~La~   23 (165)
T d2iyva1          10 PGSGKSTIGRRLAK   23 (165)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999888753

>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=92.97  E-value=0.018  Score=36.06  Aligned_cols=14  Identities=43%  Similarity=0.757  Sum_probs=12.1

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus         9 ~GsGKsTi~k~La~   22 (161)
T d1viaa_           9 MGSGKSTLARALAK   22 (161)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999988853

>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=92.90  E-value=0.02  Score=36.56  Aligned_cols=15  Identities=20%  Similarity=0.288  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||++.|...
T Consensus        11 sG~GK~tl~~~L~~~   25 (182)
T d1znwa1          11 SAVGKSTVVRCLRER   25 (182)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHhh
Confidence            699999999999754

>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=92.89  E-value=0.019  Score=38.75  Aligned_cols=16  Identities=25%  Similarity=0.225  Sum_probs=13.7

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|+|||||++.+.+-.
T Consensus        41 nGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          41 NGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCcHHHHHHHHhCCC
Confidence            5999999999988754

>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=92.85  E-value=0.019  Score=38.66  Aligned_cols=16  Identities=25%  Similarity=0.179  Sum_probs=13.7

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|+|||||++.+.+-.
T Consensus        37 nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          37 NGAGKTTTLRIISTLI   52 (238)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCCHHHHHHHHhcCC
Confidence            5899999999888754

>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=92.83  E-value=0.019  Score=39.14  Aligned_cols=15  Identities=20%  Similarity=0.224  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|||||||++.+.+-
T Consensus        37 sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          37 SGSGKSTFLRCINFL   51 (258)
T ss_dssp             TTSSHHHHHHHHTTS
T ss_pred             CCCcHHHHHHHHHcC
Confidence            699999999988764

>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=92.77  E-value=0.02  Score=36.11  Aligned_cols=14  Identities=21%  Similarity=0.361  Sum_probs=12.1

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |||||||+.+.|..
T Consensus        11 ~GsGKSTia~~LA~   24 (170)
T d1e6ca_          11 RGCGMTTVGRELAR   24 (170)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999988853

>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=92.75  E-value=0.012  Score=39.77  Aligned_cols=16  Identities=25%  Similarity=0.316  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        40 sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          40 SGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             CHHHHHHHHHHHHTSS
T ss_pred             CCCcHHHHHHHHHcCc
Confidence            6899999999888743

>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=92.73  E-value=0.022  Score=36.30  Aligned_cols=23  Identities=13%  Similarity=0.300  Sum_probs=16.1

Q ss_pred             EEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          131 FLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       131 ~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ++.+.+-  ..++++++.+...+.+
T Consensus       157 ~~~Id~~--~~~eeV~~~I~~~l~k  179 (180)
T d1akya1         157 WAGVDAS--QPPATVWADILNKLGK  179 (180)
T ss_dssp             EEEEETT--SCHHHHHHHHHHHHTC
T ss_pred             EEEEECC--CCHHHHHHHHHHHHcc
Confidence            5556544  3689999999887643

>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=92.73  E-value=0.022  Score=36.79  Aligned_cols=24  Identities=4%  Similarity=0.360  Sum_probs=17.7

Q ss_pred             EEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          131 FLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       131 ~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      ++.+.+-  ..++++++.+.+.+.++
T Consensus       172 ~~~Id~~--~s~eeV~~~I~~~i~~~  195 (196)
T d1ukza_         172 VVRVRCD--RSVEDVYKDVQDAIRDS  195 (196)
T ss_dssp             EEEEECS--SCHHHHHHHHHHHHHHH
T ss_pred             EEEEECC--CCHHHHHHHHHHHHHhh
Confidence            4566543  37999999999988764

>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=92.69  E-value=0.59  Score=30.33  Aligned_cols=76  Identities=17%  Similarity=0.177  Sum_probs=49.6

Q ss_pred             EEEEEEeCCChhhhhccchhhccCCcEEEEEEECCChhHHHHHHHHHHHHHHhCCCCceEE-EEEeCCCCcccccCCHHH
Q 030225           41 IKFDIWDTAGQERYHSLAPMYYRGAAAAVVVYDITSMDSFERAKKWVQELQRQGNPNLIMF-LVANKVDLEEKRKVKNEE  119 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i-vi~nK~D~~~~~~~~~~~  119 (181)
                      +.+.++|+++....  .....+..+|.++++... +..++..+.+.+..+.+.   +.|++ +|.|+.+... .......
T Consensus       112 ~d~IiiD~~~~~~~--~~~~~l~~aD~viiv~~~-~~~s~~~~~~~~~~~~~~---~~~~~giv~N~~~~~~-~~~~~~~  184 (237)
T d1g3qa_         112 FDFILIDCPAGLQL--DAMSAMLSGEEALLVTNP-EISCLTDTMKVGIVLKKA---GLAILGFVLNRYGRSD-RDIPPEA  184 (237)
T ss_dssp             CSEEEEECCSSSSH--HHHHHHTTCSEEEEEECS-CHHHHHHHHHHHHHHHHT---TCEEEEEEEEEETSCT-TCCCHHH
T ss_pred             CCEEEEcccccccc--cchhhhhhhhcccccccc-cceecchhhHHHHHHhhh---hhhhhhhhhccccccc-chhhhHH
Confidence            57889999986532  234456779999999886 466777777766666543   45554 7889998643 3344444


Q ss_pred             HHHH
Q 030225          120 GELY  123 (181)
Q Consensus       120 ~~~~  123 (181)
                      .+.+
T Consensus       185 ~~~~  188 (237)
T d1g3qa_         185 AEDV  188 (237)
T ss_dssp             HHHH
T ss_pred             HHhh
Confidence            4433

>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=92.66  E-value=0.022  Score=38.60  Aligned_cols=15  Identities=47%  Similarity=0.525  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||++++.+...
T Consensus        55 pGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          55 VGIGKTTLAKFTVKR   69 (287)
T ss_dssp             CSSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            899999999998753

>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=92.59  E-value=0.024  Score=36.03  Aligned_cols=23  Identities=17%  Similarity=0.264  Sum_probs=16.7

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHHH
Q 030225          129 LSFLETSAKSAHNVNELFYEIAKRL  153 (181)
Q Consensus       129 ~~~~~~Sa~~~~gi~~~~~~l~~~~  153 (181)
                      ..++.+.|.  ..++++++.|.+.+
T Consensus       156 ~~~~~IDa~--~~ieeV~~~I~~~l  178 (179)
T d1e4va1         156 TKYAKVDGT--KPVAEVRADLEKIL  178 (179)
T ss_dssp             CEEEEEETT--SCHHHHHHHHHHHH
T ss_pred             CcEEEEECC--CCHHHHHHHHHHHh
Confidence            457788864  46899999887654

>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=92.32  E-value=0.019  Score=37.06  Aligned_cols=14  Identities=43%  Similarity=0.764  Sum_probs=12.0

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      .||||||+++.|..
T Consensus        18 ~GsGKTTl~~~L~~   31 (197)
T d2vp4a1          18 IGSGKTTYLNHFEK   31 (197)
T ss_dssp             TTSCHHHHHHTTGG
T ss_pred             CCCCHHHHHHHHHH
Confidence            48999999998874

>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=92.27  E-value=0.026  Score=37.81  Aligned_cols=16  Identities=25%  Similarity=0.241  Sum_probs=13.9

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+||||+++.+...-
T Consensus        61 pG~GKTt~a~~la~~~   76 (253)
T d1sxja2          61 PGIGKTTAAHLVAQEL   76 (253)
T ss_dssp             TTSSHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            7999999999998643

>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=92.27  E-value=0.027  Score=36.29  Aligned_cols=31  Identities=16%  Similarity=0.179  Sum_probs=22.0

Q ss_pred             EEEEecCCCCCHHHHHHHHHHHHHhhCCCCcccc
Q 030225          131 FLETSAKSAHNVNELFYEIAKRLAEVNPSRQTGM  164 (181)
Q Consensus       131 ~~~~Sa~~~~gi~~~~~~l~~~~~~~~~~~~~~~  164 (181)
                      +..+.   +.+.+++++.+...+..+-+.+.+..
T Consensus       155 l~~id---g~~~~eV~~~I~~~i~~~l~~~~~~~  185 (189)
T d2ak3a1         155 LETFS---GTETNKIWPHVYAFLQTKLPQRSQET  185 (189)
T ss_dssp             EEEEE---CSSHHHHHHHHHHHHHTTSCBCSCCC
T ss_pred             EEEEC---CCChHHHHHHHHHHHHHHhhccccCC
Confidence            44454   45689999999999988766544443

>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=92.25  E-value=0.027  Score=37.34  Aligned_cols=15  Identities=33%  Similarity=0.541  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+...
T Consensus        54 ~G~GKTtla~~iak~   68 (231)
T d1iqpa2          54 PGVGKTTAALALARE   68 (231)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHH
Confidence            799999999988764

>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=92.19  E-value=0.026  Score=38.37  Aligned_cols=16  Identities=25%  Similarity=0.291  Sum_probs=13.7

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +|||||||++.+.+-.
T Consensus        39 nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          39 NGSGKSTLINVITGFL   54 (254)
T ss_dssp             TTSSHHHHHHHHTTSS
T ss_pred             CCCcHHHHHHHHHCCC
Confidence            5899999999988753

>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=92.10  E-value=0.028  Score=37.92  Aligned_cols=14  Identities=29%  Similarity=0.320  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|+|||||++++..
T Consensus        38 ~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          38 RRTGKSSIIKIGIN   51 (283)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            69999999999874

>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=91.99  E-value=0.031  Score=36.03  Aligned_cols=24  Identities=17%  Similarity=0.364  Sum_probs=17.3

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          130 SFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       130 ~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      .+..+.+-  ..++++++.+...+..
T Consensus       169 ~~~~Id~~--~s~~eV~~~I~~~i~~  192 (194)
T d3adka_         169 IVRKVNAE--GSVDDVFSQVCTHLDT  192 (194)
T ss_dssp             CEEEEECC--SCHHHHHHHHHHHHHT
T ss_pred             CEEEEECC--CCHHHHHHHHHHHHHh
Confidence            35667653  3799999999887643

>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=91.97  E-value=0.031  Score=35.90  Aligned_cols=23  Identities=22%  Similarity=0.394  Sum_probs=16.8

Q ss_pred             EEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          131 FLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       131 ~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      ++.+.|-  ..++++++.|.+.+.+
T Consensus       170 ~~~IDa~--~s~eeV~~~I~~il~k  192 (194)
T d1teva_         170 VKKIDAS--KSVDEVFDEVVQIFDK  192 (194)
T ss_dssp             EEEEETT--SCHHHHHHHHHHHHHH
T ss_pred             EEEEECC--CCHHHHHHHHHHHHhc
Confidence            5566663  3799999999986654

>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=91.93  E-value=0.017  Score=39.29  Aligned_cols=14  Identities=29%  Similarity=0.494  Sum_probs=11.8

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +|||||||++.+.+
T Consensus        53 sGsGKSTLl~ll~g   66 (255)
T d2hyda1          53 SGGGKSTLINLIPR   66 (255)
T ss_dssp             TTSSHHHHHTTTTT
T ss_pred             CCCcHHHHHHHHHh
Confidence            69999999976664

>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=91.93  E-value=0.03  Score=36.38  Aligned_cols=14  Identities=36%  Similarity=0.536  Sum_probs=11.7

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      .||||||+++.|..
T Consensus         9 dGsGKST~~~~L~~   22 (208)
T d1gsia_           9 DGAGKRTLVEKLSG   22 (208)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            48999999988764

>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=91.82  E-value=0.033  Score=36.52  Aligned_cols=15  Identities=40%  Similarity=0.669  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||||||||+++|+..
T Consensus        11 SG~GK~tl~~~L~~~   25 (205)
T d1s96a_          11 SGAGKSSLIQALLKT   25 (205)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHhh
Confidence            799999999999864

>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=91.69  E-value=0.033  Score=37.43  Aligned_cols=15  Identities=33%  Similarity=0.339  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||++++.+...
T Consensus        52 pGtGKT~l~~~l~~~   66 (276)
T d1fnna2          52 PGTGKTVTLRKLWEL   66 (276)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999988753

>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=91.63  E-value=0.036  Score=35.52  Aligned_cols=24  Identities=13%  Similarity=0.188  Sum_probs=17.9

Q ss_pred             EEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          131 FLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       131 ~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      +..+.+-  ..++++++.|...+.+.
T Consensus       165 ~~~Id~~--~s~eeV~~~I~~~l~k~  188 (190)
T d1ak2a1         165 HSAIDAS--QTPDVVFASILAAFSKA  188 (190)
T ss_dssp             EEEEETT--SCHHHHHHHHHHHHHHH
T ss_pred             EEEEECC--CCHHHHHHHHHHHHHHh
Confidence            4556653  37999999999888654

>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=91.57  E-value=0.037  Score=35.67  Aligned_cols=14  Identities=29%  Similarity=0.681  Sum_probs=12.5

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||||||||+++|..
T Consensus         9 sGsGK~tl~~~L~~   22 (190)
T d1lvga_           9 SGAGKSTLLKKLFQ   22 (190)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999999865

>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=91.36  E-value=0.039  Score=36.52  Aligned_cols=15  Identities=53%  Similarity=0.685  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||||++.+...
T Consensus        42 ~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          42 PGTGKTSTILALTKE   56 (237)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHH
Confidence            799999999998754

>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=91.23  E-value=0.041  Score=36.27  Aligned_cols=15  Identities=33%  Similarity=0.368  Sum_probs=12.7

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+||||+++.+...
T Consensus        45 ~G~GKTt~a~~la~~   59 (224)
T d1sxjb2          45 PGIGKTTSVHCLAHE   59 (224)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCchhhHHHHHHH
Confidence            799999999888653

>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=91.16  E-value=0.042  Score=36.22  Aligned_cols=15  Identities=40%  Similarity=0.627  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+||||+++.+...
T Consensus        44 ~G~GKttl~~~la~~   58 (227)
T d1sxjc2          44 PGTGKTSTIVALARE   58 (227)
T ss_dssp             SSSSHHHHHHHHHHH
T ss_pred             CCCChhHHHHHHHHH
Confidence            799999999999864

>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=90.95  E-value=0.045  Score=35.66  Aligned_cols=25  Identities=12%  Similarity=0.151  Sum_probs=17.2

Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          129 LSFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       129 ~~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      -.++.+.|.  ..++++.+.+.+.+.+
T Consensus       181 ~~~~~IDa~--~~~e~v~~~I~~~i~~  205 (210)
T d4tmka_         181 KSIHTIDAT--QPLEAVMDAIRTTVTH  205 (210)
T ss_dssp             TTEEEEETT--SCHHHHHHHHHHHHHH
T ss_pred             CCEEEEECC--CCHHHHHHHHHHHHHH
Confidence            345666653  4688888888877665

>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=90.86  E-value=0.045  Score=35.55  Aligned_cols=14  Identities=36%  Similarity=0.562  Sum_probs=12.2

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||||||++++.|..
T Consensus        52 pGVGKTalv~~LA~   65 (195)
T d1jbka_          52 PGVGKTAIVEGLAQ   65 (195)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCcccHHHHHHHHH
Confidence            89999999988764

>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=90.75  E-value=0.048  Score=36.75  Aligned_cols=15  Identities=27%  Similarity=0.406  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+.+.
T Consensus        49 pGtGKT~la~alA~~   63 (246)
T d1d2na_          49 PHSGKTALAAKIAEE   63 (246)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhhc
Confidence            899999999999754

>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=90.68  E-value=0.062  Score=34.36  Aligned_cols=16  Identities=19%  Similarity=0.355  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +||||||+.+.|....
T Consensus        12 ~gSGKstva~~l~~~g   27 (191)
T d1uf9a_          12 IGSGKSTVAALLRSWG   27 (191)
T ss_dssp             TTSCHHHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHHCC
Confidence            6999999998886543

>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=90.45  E-value=0.036  Score=35.42  Aligned_cols=13  Identities=38%  Similarity=0.685  Sum_probs=11.5

Q ss_pred             CCCchhHHHHHHh
Q 030225            1 MGTGKTSLVLRFV   13 (181)
Q Consensus         1 ~~~GKttLl~~l~   13 (181)
                      .|||||||+.++.
T Consensus        33 NGsGKStil~Ai~   45 (222)
T d1qhla_          33 NGAGKSTTMAAFV   45 (222)
T ss_dssp             CSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHH
Confidence            4899999999985

>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=90.34  E-value=0.052  Score=36.07  Aligned_cols=13  Identities=31%  Similarity=0.503  Sum_probs=11.7

Q ss_pred             CCchhHHHHHHhh
Q 030225            2 GTGKTSLVLRFVK   14 (181)
Q Consensus         2 ~~GKttLl~~l~~   14 (181)
                      ||||||+++.|..
T Consensus        12 GsGKST~~~~L~~   24 (241)
T d2ocpa1          12 AVGKSTFVKLLTK   24 (241)
T ss_dssp             TSSHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHH
Confidence            8999999998874

>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=90.12  E-value=0.046  Score=36.49  Aligned_cols=15  Identities=27%  Similarity=0.527  Sum_probs=13.0

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+||||+++.+...
T Consensus        42 ~G~GKTt~~~~la~~   56 (252)
T d1sxje2          42 NGTGKKTRCMALLES   56 (252)
T ss_dssp             TTSSHHHHHHTHHHH
T ss_pred             CCCCHHHHHHHHHHh
Confidence            799999999988763

>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=90.07  E-value=0.63  Score=30.31  Aligned_cols=91  Identities=19%  Similarity=0.198  Sum_probs=52.6

Q ss_pred             EEEEEEeCCChhhhhc------cchhh--ccCCcEEEEEEECCChh-HHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcc
Q 030225           41 IKFDIWDTAGQERYHS------LAPMY--YRGAAAAVVVYDITSMD-SFERAKKWVQELQRQGNPNLIMFLVANKVDLEE  111 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~------~~~~~--~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~  111 (181)
                      ..+.++||+|...+..      ....+  .-..+-.++|.|++... ..+.+...   ....   + +--+|+||.|...
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~---~~~~---~-~~~lI~TKlDet~  167 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKF---NQAS---K-IGTIIITKMDGTA  167 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHH---HHHC---T-TEEEEEECTTSCS
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhh---hccc---C-cceEEEecccCCC
Confidence            4688999999532221      11111  12356788898987543 23222222   2111   2 3346689999533


Q ss_pred             cccCCHHHHHHHHHHcCCeEEEEecCCCCCHHH
Q 030225          112 KRKVKNEEGELYAQENGLSFLETSAKSAHNVNE  144 (181)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  144 (181)
                          ..-.+...+...++|+.+++  +|+++++
T Consensus       168 ----~~G~~l~~~~~~~lPi~~it--~Gq~v~D  194 (211)
T d1j8yf2         168 ----KGGGALSAVAATGATIKFIG--TGEKIDE  194 (211)
T ss_dssp             ----CHHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             ----cccHHHHHHHHHCcCEEEEe--CCCCccc
Confidence                33455667777889988887  5777654

>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=90.05  E-value=0.059  Score=35.22  Aligned_cols=18  Identities=17%  Similarity=0.220  Sum_probs=14.2

Q ss_pred             CCCHHHHHHHHHHHHHhh
Q 030225          139 AHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       139 ~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+++++|+.+.+.+.++
T Consensus       205 ~~s~eeV~~~I~~~i~kk  222 (223)
T d1q3ta_         205 GLNIQEVVEKIKAEAEKR  222 (223)
T ss_dssp             SCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhh
Confidence            447999999999887654

>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=89.87  E-value=0.063  Score=36.17  Aligned_cols=15  Identities=33%  Similarity=0.355  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        51 pGtGKT~la~aia~~   65 (247)
T d1ixza_          51 PGVGKTHLARAVAGE   65 (247)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCChhHHHHHHHHH
Confidence            899999999999864

>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=89.43  E-value=0.071  Score=34.34  Aligned_cols=17  Identities=24%  Similarity=0.210  Sum_probs=13.9

Q ss_pred             CCCchhHHHHHHhhCCC
Q 030225            1 MGTGKTSLVLRFVKGQF   17 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~   17 (181)
                      ||+|||+|+..+.....
T Consensus        32 ~GsGKT~l~l~la~~~~   48 (242)
T d1n0wa_          32 FRTGKTQICHTLAVTCQ   48 (242)
T ss_dssp             TTSSHHHHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHHHHH
Confidence            79999999998876443

>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=89.31  E-value=0.069  Score=36.48  Aligned_cols=14  Identities=29%  Similarity=0.390  Sum_probs=12.2

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||||||+|++.|..
T Consensus        48 ~GvGKTalv~~la~   61 (268)
T d1r6bx2          48 SGVGKTAIAEGLAW   61 (268)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            89999999988764

>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=88.93  E-value=0.081  Score=35.79  Aligned_cols=16  Identities=31%  Similarity=0.360  Sum_probs=13.8

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+|||+|++.+....
T Consensus        47 pGtGKT~l~~ala~~~   62 (258)
T d1e32a2          47 PGTGKTLIARAVANET   62 (258)
T ss_dssp             TTSSHHHHHHHHHHHT
T ss_pred             CCCCchHHHHHHHHHh
Confidence            8999999999988643

>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=88.71  E-value=0.087  Score=34.26  Aligned_cols=18  Identities=0%  Similarity=0.049  Sum_probs=15.0

Q ss_pred             CCCHHHHHHHHHHHHHhh
Q 030225          139 AHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       139 ~~gi~~~~~~l~~~~~~~  156 (181)
                      +.+++++++.+.+.+.++
T Consensus       204 ~~s~eeV~~~I~~~I~~K  221 (225)
T d1ckea_         204 TLSIEQVIEKALQYARQK  221 (225)
T ss_dssp             TSCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHH
Confidence            457999999999988765

>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=88.69  E-value=0.087  Score=35.69  Aligned_cols=15  Identities=40%  Similarity=0.390  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|++.+...
T Consensus        54 pGtGKT~la~~iA~~   68 (256)
T d1lv7a_          54 PGTGKTLLAKAIAGE   68 (256)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCCccHHHHHHHHH
Confidence            899999999999853

>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=88.58  E-value=0.082  Score=36.87  Aligned_cols=14  Identities=14%  Similarity=0.230  Sum_probs=11.6

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||||||||.+.|..
T Consensus        89 sgSGKSTla~~L~~  102 (308)
T d1sq5a_          89 VAVGKSTTARVLQA  102 (308)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCCcHHHHHHHH
Confidence            69999999888753

>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=88.46  E-value=0.053  Score=35.86  Aligned_cols=24  Identities=8%  Similarity=0.318  Sum_probs=18.2

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHHHHh
Q 030225          130 SFLETSAKSAHNVNELFYEIAKRLAE  155 (181)
Q Consensus       130 ~~~~~Sa~~~~gi~~~~~~l~~~~~~  155 (181)
                      +++.+.+  +..++++.+.+.+.+.+
T Consensus       213 ~~~~ID~--~~~ie~v~~~i~~~i~~  236 (241)
T d1p5zb_         213 PILTLDV--NEDFKDKYESLVEKVKE  236 (241)
T ss_dssp             CEEEEEC--CSCHHHHHHHHHHHHHH
T ss_pred             CEEEEEC--CCCHHHHHHHHHHHHHH
Confidence            5677776  35899999999887754

>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=88.25  E-value=0.094  Score=36.13  Aligned_cols=13  Identities=23%  Similarity=0.450  Sum_probs=11.0

Q ss_pred             CCCchhHHHHHHh
Q 030225            1 MGTGKTSLVLRFV   13 (181)
Q Consensus         1 ~~~GKttLl~~l~   13 (181)
                      +|||||||...|.
T Consensus        36 qGSGKSTl~~~l~   48 (286)
T d1odfa_          36 QGSGKSFTSIQIY   48 (286)
T ss_dssp             TTSSHHHHHHHHH
T ss_pred             CCCCHHHHHHHHH
Confidence            6999999987764

>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=88.15  E-value=0.098  Score=35.55  Aligned_cols=16  Identities=31%  Similarity=0.293  Sum_probs=13.9

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+|||+|++++.+.-
T Consensus        50 ~GtGKT~l~~ala~~~   65 (265)
T d1r7ra3          50 PGCGKTLLAKAIANEC   65 (265)
T ss_dssp             TTSSHHHHHHHHHHHT
T ss_pred             CCCcchhHHHHHHHHh
Confidence            7999999999998644

>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=88.02  E-value=0.099  Score=36.36  Aligned_cols=15  Identities=40%  Similarity=0.552  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||.|.+++...
T Consensus        58 pG~GKT~lAkalA~~   72 (309)
T d1ofha_          58 TGVGKTEIARRLAKL   72 (309)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhhc
Confidence            899999999998754

>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=87.90  E-value=0.093  Score=34.39  Aligned_cols=13  Identities=38%  Similarity=0.319  Sum_probs=11.2

Q ss_pred             CCchhHHHHHHhh
Q 030225            2 GTGKTSLVLRFVK   14 (181)
Q Consensus         2 ~~GKttLl~~l~~   14 (181)
                      ||||||+++.|..
T Consensus        13 GsGKST~~~~L~~   25 (214)
T d1tmka_          13 RTGKTTQCNILYK   25 (214)
T ss_dssp             TSSHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHH
Confidence            8999999988763

>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=87.73  E-value=0.11  Score=33.91  Aligned_cols=25  Identities=8%  Similarity=0.146  Sum_probs=15.8

Q ss_pred             eEEEEecCCCCCHHHHHHHHHHHHHhh
Q 030225          130 SFLETSAKSAHNVNELFYEIAKRLAEV  156 (181)
Q Consensus       130 ~~~~~Sa~~~~gi~~~~~~l~~~~~~~  156 (181)
                      .++.+.+.  ..++++.+.+...+.+.
T Consensus       171 ~~~~IDa~--~~~e~V~~~I~~~v~~~  195 (209)
T d1nn5a_         171 NWKMVDAS--KSIEAVHEDIRVLSEDA  195 (209)
T ss_dssp             CEEEEETT--SCHHHHHHHHHHHHHHH
T ss_pred             CEEEEECC--CCHHHHHHHHHHHHHHH
Confidence            46667653  36888877766655443

>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=87.69  E-value=0.1  Score=34.38  Aligned_cols=16  Identities=25%  Similarity=0.281  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+|||+|+..+....
T Consensus        43 pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          43 FRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             TTSSHHHHHHHHTTTT
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            8999999998887543

>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=87.49  E-value=0.11  Score=35.43  Aligned_cols=15  Identities=20%  Similarity=0.412  Sum_probs=12.7

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      +|+|||||+..+...
T Consensus        53 gGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          53 AGSGKSVIASQALSK   67 (277)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHh
Confidence            699999999988753

>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=87.38  E-value=0.072  Score=37.38  Aligned_cols=14  Identities=36%  Similarity=0.508  Sum_probs=12.3

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+|||+|++++..
T Consensus        37 pG~GKT~lar~~~~   50 (333)
T d1g8pa_          37 RGTGKSTAVRALAA   50 (333)
T ss_dssp             GGGCTTHHHHHHHH
T ss_pred             CCccHHHHHHHHHH
Confidence            79999999998853

>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=86.86  E-value=0.11  Score=36.62  Aligned_cols=14  Identities=36%  Similarity=0.579  Sum_probs=12.3

Q ss_pred             CCchhHHHHHHhhC
Q 030225            2 GTGKTSLVLRFVKG   15 (181)
Q Consensus         2 ~~GKttLl~~l~~~   15 (181)
                      ||||||+++.|...
T Consensus        15 GsGKSTl~~~L~~~   28 (331)
T d1osna_          15 GIGKTTAAEEFLHH   28 (331)
T ss_dssp             SSCTTHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHH
Confidence            89999999998754

>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=86.65  E-value=0.17  Score=32.72  Aligned_cols=16  Identities=31%  Similarity=0.505  Sum_probs=12.6

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      +||||||+.+.|....
T Consensus        11 igSGKStv~~~l~~~G   26 (205)
T d1jjva_          11 IGSGKTTIANLFTDLG   26 (205)
T ss_dssp             TTSCHHHHHHHHHTTT
T ss_pred             CCCCHHHHHHHHHHCC
Confidence            5999999998776433

>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=86.57  E-value=0.5  Score=32.02  Aligned_cols=14  Identities=43%  Similarity=0.539  Sum_probs=11.8

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      |++|||+|...++.
T Consensus        66 ~~sGKT~l~l~~~~   79 (268)
T d1xp8a1          66 ESGGKTTLALAIVA   79 (268)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CccchHHHHHHHHH
Confidence            68999999987764

>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=86.47  E-value=0.081  Score=36.49  Aligned_cols=13  Identities=23%  Similarity=0.452  Sum_probs=8.6

Q ss_pred             CCCchhHHHHHHh
Q 030225            1 MGTGKTSLVLRFV   13 (181)
Q Consensus         1 ~~~GKttLl~~l~   13 (181)
                      |||||||+.++|.
T Consensus        13 SGSGKTTva~~l~   25 (288)
T d1a7ja_          13 SGAGTSTVKHTFD   25 (288)
T ss_dssp             C---CCTHHHHHH
T ss_pred             CCCcHHHHHHHHH
Confidence            6999999999875

>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=86.40  E-value=0.18  Score=32.05  Aligned_cols=17  Identities=29%  Similarity=0.485  Sum_probs=14.7

Q ss_pred             CCCchhHHHHHHhhCCC
Q 030225            1 MGTGKTSLVLRFVKGQF   17 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~   17 (181)
                      ||+|||||.-.|.....
T Consensus        23 sG~GKStlal~l~~~g~   39 (176)
T d1kkma_          23 SGVGKSETALELVQRGH   39 (176)
T ss_dssp             TTSCHHHHHHHHHHTTC
T ss_pred             CCCCHHHHHHHHHHcCC
Confidence            79999999999987654

>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=86.21  E-value=0.16  Score=32.94  Aligned_cols=17  Identities=24%  Similarity=0.489  Sum_probs=13.6

Q ss_pred             CCCchhHHHHHHhhCCC
Q 030225            1 MGTGKTSLVLRFVKGQF   17 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~   17 (181)
                      +||||||+.+.|....+
T Consensus        12 igSGKStv~~~l~~~G~   28 (208)
T d1vhta_          12 IGSGKSTVANAFADLGI   28 (208)
T ss_dssp             TTSCHHHHHHHHHHTTC
T ss_pred             CcCCHHHHHHHHHHCCC
Confidence            69999999988765544

>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=86.14  E-value=0.14  Score=36.14  Aligned_cols=14  Identities=21%  Similarity=0.295  Sum_probs=12.0

Q ss_pred             CCchhHHHHHHhhC
Q 030225            2 GTGKTSLVLRFVKG   15 (181)
Q Consensus         2 ~~GKttLl~~l~~~   15 (181)
                      ||||||+++.|...
T Consensus        16 GsGKSTl~~~L~~~   29 (333)
T d1p6xa_          16 GIGKSTTGRVMASA   29 (333)
T ss_dssp             TSSHHHHHHHHHSG
T ss_pred             cCCHHHHHHHHHHH
Confidence            89999999988753

>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=86.00  E-value=0.19  Score=31.92  Aligned_cols=17  Identities=24%  Similarity=0.468  Sum_probs=14.6

Q ss_pred             CCCchhHHHHHHhhCCC
Q 030225            1 MGTGKTSLVLRFVKGQF   17 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~   17 (181)
                      ||+|||||.-.|.....
T Consensus        24 sG~GKS~lal~l~~~G~   40 (177)
T d1knxa2          24 SGIGKSECALDLINKNH   40 (177)
T ss_dssp             SSSSHHHHHHHHHTTTC
T ss_pred             CCCCHHHHHHHHHHcCC
Confidence            79999999999987654

>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=85.97  E-value=0.15  Score=33.60  Aligned_cols=15  Identities=67%  Similarity=0.904  Sum_probs=13.2

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|+..+..+
T Consensus        35 pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          35 TGTGKTLLVSRFVEN   49 (242)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            899999999888755

>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=85.83  E-value=0.15  Score=33.65  Aligned_cols=16  Identities=31%  Similarity=0.409  Sum_probs=13.5

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+|||+|.-.+....
T Consensus        45 pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          45 FGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             TTSSHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            8999999998887544

>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=85.61  E-value=3.6  Score=27.49  Aligned_cols=115  Identities=12%  Similarity=0.139  Sum_probs=61.7

Q ss_pred             EEEEEEeCCChhhhhccchhh-ccCCcEEEEEEECCChhHHHHHHHHHHHHHHhC-CCCceE-EEEEeCCCCcccccCCH
Q 030225           41 IKFDIWDTAGQERYHSLAPMY-YRGAAAAVVVYDITSMDSFERAKKWVQELQRQG-NPNLIM-FLVANKVDLEEKRKVKN  117 (181)
Q Consensus        41 ~~~~i~D~~G~~~~~~~~~~~-~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~-ivi~nK~D~~~~~~~~~  117 (181)
                      +.+.++|+|+........... ...++.++++.. .+..++..+...++.+.... ..+.++ .++.|+.+....    .
T Consensus       119 ~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~-~~~~s~~~~~~~~~~i~~~~~~~~~~~~gvv~n~~~~~~~----~  193 (289)
T d2afhe1         119 LDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCS-GEMMAMYAANNISKGIVKYANSGSVRLGGLICNSRNTDRE----D  193 (289)
T ss_dssp             CSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEEC-SSHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCTTH----H
T ss_pred             CCeEeeccCCccCHHHHHHHHHhhccceeecccc-hhHHHHHHHHHHHHHHHhhhhcccccccceeehhhcchhh----H
Confidence            567899998764322222222 235666666655 45566666656555554422 234444 367888764321    2


Q ss_pred             HHHHHHHHHcCCeEEEE---------ecCCCC---------CHHHHHHHHHHHHHhhCCCC
Q 030225          118 EEGELYAQENGLSFLET---------SAKSAH---------NVNELFYEIAKRLAEVNPSR  160 (181)
Q Consensus       118 ~~~~~~~~~~~~~~~~~---------Sa~~~~---------gi~~~~~~l~~~~~~~~~~~  160 (181)
                      +....+.+..+.+++.+         +...|.         ....-+..|++.+.++....
T Consensus       194 ~~~~~~~~~~g~~vl~~IP~~~~v~eA~~~g~pv~~~~p~S~~a~~y~~LA~ei~e~~~~~  254 (289)
T d2afhe1         194 ELIIALANKLGTQMIHFVPRDNVVQRAEIRRMTVIEYDPKAKQADEYRALARKVVDNKLLV  254 (289)
T ss_dssp             HHHHHHHHHHTSCEEEEECCCHHHHHHHHTTSCHHHHCTTSHHHHHHHHHHHHHHHCCCCB
T ss_pred             HHHHHHHHHcCCeEEEEEeccHHHHHHHHcCCceEEECcCCHHHHHHHHHHHHHHcCCCCC
Confidence            33455666667665432         112222         23345777777777765543

>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=85.59  E-value=0.14  Score=35.93  Aligned_cols=13  Identities=38%  Similarity=0.506  Sum_probs=11.4

Q ss_pred             CCchhHHHHHHhh
Q 030225            2 GTGKTSLVLRFVK   14 (181)
Q Consensus         2 ~~GKttLl~~l~~   14 (181)
                      ||||||+++.|..
T Consensus        14 GsGKTTl~~~La~   26 (329)
T d1e2ka_          14 GMGKTTTTQLLVA   26 (329)
T ss_dssp             TSSHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHH
Confidence            8999999998863

>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=85.00  E-value=0.17  Score=36.46  Aligned_cols=13  Identities=38%  Similarity=0.567  Sum_probs=10.6

Q ss_pred             CCCchhHHHHHHh
Q 030225            1 MGTGKTSLVLRFV   13 (181)
Q Consensus         1 ~~~GKttLl~~l~   13 (181)
                      ||||||+|++.|.
T Consensus        52 ~GvGKtaiv~~la   64 (387)
T d1qvra2          52 PGVGKTAIVEGLA   64 (387)
T ss_dssp             TTSCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHH
Confidence            8999999886554

>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=84.25  E-value=0.2  Score=32.56  Aligned_cols=14  Identities=43%  Similarity=0.712  Sum_probs=11.6

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+|||+|+..+..
T Consensus        35 ~G~GKT~la~~~~~   48 (242)
T d1tf7a1          35 SGTGKTLFSIQFLY   48 (242)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999877653

>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=84.09  E-value=0.26  Score=30.99  Aligned_cols=17  Identities=29%  Similarity=0.501  Sum_probs=14.5

Q ss_pred             CCCchhHHHHHHhhCCC
Q 030225            1 MGTGKTSLVLRFVKGQF   17 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~~   17 (181)
                      ||+|||||.-.|+....
T Consensus        24 sg~GKS~la~~l~~~g~   40 (169)
T d1ko7a2          24 SGIGKSETALELIKRGH   40 (169)
T ss_dssp             TTSSHHHHHHHHHHTTC
T ss_pred             CCCCHHHHHHHHHHcCC
Confidence            79999999989887754

>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=83.94  E-value=0.21  Score=32.69  Aligned_cols=16  Identities=25%  Similarity=0.428  Sum_probs=13.4

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+|||+|+..+...-
T Consensus        43 ~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          43 FGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             TTSSHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            7999999999987543

>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=83.71  E-value=0.22  Score=32.52  Aligned_cols=14  Identities=29%  Similarity=0.546  Sum_probs=11.9

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +||||||.+-+|..
T Consensus        15 tGvGKTTTiaKLA~   28 (207)
T d1okkd2          15 NGVGKTTTIAKLGR   28 (207)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999988853

>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=83.65  E-value=0.22  Score=33.60  Aligned_cols=69  Identities=9%  Similarity=0.035  Sum_probs=32.4

Q ss_pred             EEEEEECCChhHHHHHHHHHHHHHHhCCCCceEEEE--EeCCCCccccc-------CCHHHHHHHHHHcCCeEEEEecCC
Q 030225           68 AVVVYDITSMDSFERAKKWVQELQRQGNPNLIMFLV--ANKVDLEEKRK-------VKNEEGELYAQENGLSFLETSAKS  138 (181)
Q Consensus        68 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivi--~nK~D~~~~~~-------~~~~~~~~~~~~~~~~~~~~Sa~~  138 (181)
                      .+++++.........+...+......  .++.+++|  ++..+-.....       ........++++++++++.++-.+
T Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~l~~lA~~~~i~vi~~~q~~  197 (277)
T d1cr2a_         120 TFHLYDSFAEAETDRLLAKLAYMRSG--LGCDVIILDHISIVVSASGESDERKMIDNLMTKLKGFAKSTGVVLVVICHLK  197 (277)
T ss_dssp             CEEEECCC-CCCHHHHHHHHHHHHHT--TCCSEEEEEEEEC----------CHHHHHHHHHHHHHHHHHCCEEEEEEECC
T ss_pred             eeeeeccccchhHHHHHHHhhhhhhc--cCcceEEEcccccccccccccchhHHHHHHHHHHHHHhhhccccceeecccc
Confidence            44555554444455555554444443  23345554  34433211111       112345667888899888887554

>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=83.55  E-value=0.23  Score=32.40  Aligned_cols=16  Identities=38%  Similarity=0.430  Sum_probs=13.7

Q ss_pred             CCCchhHHHHHHhhCC
Q 030225            1 MGTGKTSLVLRFVKGQ   16 (181)
Q Consensus         1 ~~~GKttLl~~l~~~~   16 (181)
                      ||+|||-|++++...-
T Consensus        45 ~G~GKTHLl~A~~~~~   60 (213)
T d1l8qa2          45 VGTGKTHLLQAAGNEA   60 (213)
T ss_dssp             SSSSHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHh
Confidence            7999999999988643

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=83.38  E-value=0.3  Score=29.63  Aligned_cols=16  Identities=0%  Similarity=0.208  Sum_probs=11.3

Q ss_pred             CCceEEEEEeCCCCcc
Q 030225           96 PNLIMFLVANKVDLEE  111 (181)
Q Consensus        96 ~~~p~ivi~nK~D~~~  111 (181)
                      .++++++.|-..|-.+
T Consensus       105 ~g~~Viv~GLd~Df~~  120 (139)
T d2b8ta1         105 NGFVVIISGLDKNFKG  120 (139)
T ss_dssp             TTCEEEEECCSBCTTS
T ss_pred             cCceEEEEEecccccc
Confidence            3678888887777543

>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=82.78  E-value=0.19  Score=34.45  Aligned_cols=13  Identities=23%  Similarity=0.480  Sum_probs=11.2

Q ss_pred             CCCchhHHHHHHh
Q 030225            1 MGTGKTSLVLRFV   13 (181)
Q Consensus         1 ~~~GKttLl~~l~   13 (181)
                      .||||||+|+++.
T Consensus        33 NgsGKS~iL~Ai~   45 (308)
T d1e69a_          33 NGSGKSNIIDAIK   45 (308)
T ss_dssp             TTTCSTHHHHHHH
T ss_pred             CCCcHHHHHHHHH
Confidence            4899999999883

>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=82.75  E-value=0.2  Score=32.79  Aligned_cols=14  Identities=29%  Similarity=0.408  Sum_probs=8.0

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      +||||||.+-+|..
T Consensus        21 tGvGKTTTiAKLA~   34 (211)
T d1j8yf2          21 QGTGKATTAGKLAY   34 (211)
T ss_dssp             CCC----HHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            69999999888863

>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=82.53  E-value=0.2  Score=34.17  Aligned_cols=11  Identities=36%  Similarity=0.637  Sum_probs=8.3

Q ss_pred             CCCchhHH-HHH
Q 030225            1 MGTGKTSL-VLR   11 (181)
Q Consensus         1 ~~~GKttL-l~~   11 (181)
                      ||+||||. +++
T Consensus        23 aGTGKTt~l~~r   34 (306)
T d1uaaa1          23 AGSGKTRVITNK   34 (306)
T ss_dssp             TTSCHHHHHHHH
T ss_pred             CCccHHHHHHHH
Confidence            89999964 444

>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=81.79  E-value=0.29  Score=34.82  Aligned_cols=14  Identities=29%  Similarity=0.600  Sum_probs=12.7

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+|||+|.+.+.+
T Consensus       163 ~~~gk~~~~~~~~~  176 (362)
T d1svma_         163 IDSGKTTLAAALLE  176 (362)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            89999999999875

>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=81.57  E-value=0.29  Score=32.17  Aligned_cols=15  Identities=33%  Similarity=0.350  Sum_probs=13.1

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||+|...++..
T Consensus        46 ~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          46 FRTGKTQLSHTLCVT   60 (258)
T ss_dssp             TTCTHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            799999999998754

>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=81.51  E-value=0.3  Score=32.79  Aligned_cols=14  Identities=36%  Similarity=0.593  Sum_probs=11.7

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+|||+|+-.+..
T Consensus        38 ~G~GKS~l~l~la~   51 (274)
T d1nlfa_          38 GGAGKSMLALQLAA   51 (274)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            79999999987753

>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=81.36  E-value=0.31  Score=32.20  Aligned_cols=14  Identities=43%  Similarity=0.553  Sum_probs=12.1

Q ss_pred             CCCchhHHHHHHhh
Q 030225            1 MGTGKTSLVLRFVK   14 (181)
Q Consensus         1 ~~~GKttLl~~l~~   14 (181)
                      ||+||||+++.+..
T Consensus        43 ~G~GKtt~a~~~~~   56 (239)
T d1njfa_          43 RGVGKTSIARLLAK   56 (239)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            79999999988754

>d1eg7a_ c.37.1.10 (A:) Formyltetrahydrofolate synthetase {Moorella thermoacetica [TaxId: 1525]}

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: Formyltetrahydrofolate synthetase
species: Moorella thermoacetica [TaxId: 1525]

Probab=81.08  E-value=1.8  Score=32.08  Aligned_cols=74  Identities=12%  Similarity=0.093  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEEeCCCCcccccCCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHhhC
Q 030225           79 SFERAKKWVQELQRQGNPNLIMFLVANKVDLEEKRKVKNEEGELYAQENGLSFLETSAKSAHNVNELFYEIAKRLAEVN  157 (181)
Q Consensus        79 s~~~~~~~~~~~~~~~~~~~p~ivi~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~~~~~~~  157 (181)
                      .+.++.+.++.++..   +.|++|.+|+.......+  .+...+++.+.++.+...-++=|+|-.++-+.+++.+....
T Consensus       353 G~~NL~rHIeNi~~f---GlpvVVAIN~F~tDTd~E--i~~i~~~~~~~g~~~a~~wa~GG~Ga~dLA~~Vv~a~e~~~  426 (549)
T d1eg7a_         353 GFANLEKHIENIGKF---GVPAVVAINAFPTDTEAE--LNLLYELCAKAGAEVALSWAKGGEGGLELARKVLQTLESRP  426 (549)
T ss_dssp             HHHHHHHHHHHHHTT---TCCEEEEEECCTTCCHHH--HHHHHHHTTTSEEEEECCTTTGGGGGHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHhhhhc---CCCeEEEeccCCccchhH--HHHHHHHHhhcCcceeeecccCccchHHHHHHHHHHHhccc
Confidence            455667777777543   789999999987533222  23345566666665433334556889999999888776543

>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=80.61  E-value=0.25  Score=33.93  Aligned_cols=11  Identities=45%  Similarity=0.730  Sum_probs=8.1

Q ss_pred             CCCchhHH-HHH
Q 030225            1 MGTGKTSL-VLR   11 (181)
Q Consensus         1 ~~~GKttL-l~~   11 (181)
                      |||||||. +++
T Consensus        33 aGSGKTt~l~~r   44 (318)
T d1pjra1          33 AGSGKTRVLTHR   44 (318)
T ss_dssp             TTSCHHHHHHHH
T ss_pred             CCccHHHHHHHH
Confidence            79999964 444

>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=80.18  E-value=0.33  Score=33.87  Aligned_cols=15  Identities=33%  Similarity=0.366  Sum_probs=13.3

Q ss_pred             CCCchhHHHHHHhhC
Q 030225            1 MGTGKTSLVLRFVKG   15 (181)
Q Consensus         1 ~~~GKttLl~~l~~~   15 (181)
                      ||+|||.|.+.|-+.
T Consensus       132 pG~GKT~la~ala~~  146 (321)
T d1w44a_         132 GNSGKTPLVHALGEA  146 (321)
T ss_dssp             SSSCHHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHHH
Confidence            899999999998764